-- dump date 20140619_001146 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1094497000001 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1094497000002 Maf-like protein; Region: Maf; pfam02545 1094497000003 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 1094497000004 active site 1094497000005 dimer interface [polypeptide binding]; other site 1094497000006 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1094497000007 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1094497000008 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1094497000009 shikimate binding site; other site 1094497000010 NAD(P) binding site [chemical binding]; other site 1094497000011 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1094497000012 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 1094497000013 CoA-binding site [chemical binding]; other site 1094497000014 ATP-binding [chemical binding]; other site 1094497000015 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1094497000016 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 1094497000017 active site 1094497000018 catalytic site [active] 1094497000019 substrate binding site [chemical binding]; other site 1094497000020 DNA polymerase I; Provisional; Region: PRK05755 1094497000021 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1094497000022 active site 1094497000023 metal binding site 1 [ion binding]; metal-binding site 1094497000024 putative 5' ssDNA interaction site; other site 1094497000025 metal binding site 3; metal-binding site 1094497000026 metal binding site 2 [ion binding]; metal-binding site 1094497000027 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1094497000028 putative DNA binding site [nucleotide binding]; other site 1094497000029 putative metal binding site [ion binding]; other site 1094497000030 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 1094497000031 active site 1094497000032 catalytic site [active] 1094497000033 substrate binding site [chemical binding]; other site 1094497000034 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1094497000035 active site 1094497000036 DNA binding site [nucleotide binding] 1094497000037 catalytic site [active] 1094497000038 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1094497000039 putative catalytic site [active] 1094497000040 putative metal binding site [ion binding]; other site 1094497000041 putative phosphate binding site [ion binding]; other site 1094497000042 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1094497000043 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1094497000044 lipoprotein signal peptidase; Provisional; Region: PRK14795 1094497000045 lipoprotein signal peptidase; Provisional; Region: PRK14787 1094497000046 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1094497000047 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1094497000048 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1094497000049 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1094497000050 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 1094497000051 S-adenosylmethionine binding site [chemical binding]; other site 1094497000052 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 1094497000053 IHF dimer interface [polypeptide binding]; other site 1094497000054 IHF - DNA interface [nucleotide binding]; other site 1094497000055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1094497000056 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1094497000057 OstA-like protein; Region: OstA; pfam03968 1094497000058 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1094497000059 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1094497000060 Walker A/P-loop; other site 1094497000061 ATP binding site [chemical binding]; other site 1094497000062 Q-loop/lid; other site 1094497000063 ABC transporter signature motif; other site 1094497000064 Walker B; other site 1094497000065 D-loop; other site 1094497000066 H-loop/switch region; other site 1094497000067 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1094497000068 active site 1094497000069 phosphorylation site [posttranslational modification] 1094497000070 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1094497000071 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1094497000072 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 1094497000073 FeS/SAM binding site; other site 1094497000074 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1094497000075 Arginosuccinate synthase; Region: Arginosuc_synth; cl17227 1094497000076 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1094497000077 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094497000078 active site 1094497000079 nucleotide binding site [chemical binding]; other site 1094497000080 HIGH motif; other site 1094497000081 KMSKS motif; other site 1094497000082 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1094497000083 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1094497000084 G1 box; other site 1094497000085 putative GEF interaction site [polypeptide binding]; other site 1094497000086 GTP/Mg2+ binding site [chemical binding]; other site 1094497000087 Switch I region; other site 1094497000088 G2 box; other site 1094497000089 G3 box; other site 1094497000090 Switch II region; other site 1094497000091 G4 box; other site 1094497000092 G5 box; other site 1094497000093 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1094497000094 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 1094497000095 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1094497000096 catalytic residues [active] 1094497000097 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1094497000098 Part of AAA domain; Region: AAA_19; pfam13245 1094497000099 Family description; Region: UvrD_C_2; pfam13538 1094497000100 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1094497000101 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 1094497000102 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1094497000103 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1094497000104 PAS domain; Region: PAS_8; pfam13188 1094497000105 PAS fold; Region: PAS_7; pfam12860 1094497000106 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1094497000107 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 1094497000108 dimer interface [polypeptide binding]; other site 1094497000109 phosphorylation site [posttranslational modification] 1094497000110 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 1094497000111 ATP binding site [chemical binding]; other site 1094497000112 Mg2+ binding site [ion binding]; other site 1094497000113 G-X-G motif; other site 1094497000114 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1094497000115 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1094497000116 homotetramer interface [polypeptide binding]; other site 1094497000117 ligand binding site [chemical binding]; other site 1094497000118 catalytic site [active] 1094497000119 NAD binding site [chemical binding]; other site 1094497000120 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1094497000121 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1094497000122 putative NAD(P) binding site [chemical binding]; other site 1094497000123 active site 1094497000124 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1094497000125 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1094497000126 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1094497000127 CysZ-like protein; Reviewed; Region: PRK12768 1094497000128 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 1094497000129 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1094497000130 Flavoprotein; Region: Flavoprotein; pfam02441 1094497000131 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1094497000132 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1094497000133 ABC1 family; Region: ABC1; cl17513 1094497000134 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1094497000135 active site 1094497000136 ATP binding site [chemical binding]; other site 1094497000137 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1094497000138 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 1094497000139 S-adenosylmethionine binding site [chemical binding]; other site 1094497000140 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1094497000141 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 1094497000142 Mg2+ binding site [ion binding]; other site 1094497000143 G-X-G motif; other site 1094497000144 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 1094497000145 anchoring element; other site 1094497000146 dimer interface [polypeptide binding]; other site 1094497000147 ATP binding site [chemical binding]; other site 1094497000148 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1094497000149 active site 1094497000150 putative metal-binding site [ion binding]; other site 1094497000151 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1094497000152 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1094497000153 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 1094497000154 substrate binding pocket [chemical binding]; other site 1094497000155 membrane-bound complex binding site; other site 1094497000156 hinge residues; other site 1094497000157 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1094497000158 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1094497000159 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 1094497000160 Walker A motif; other site 1094497000161 ATP binding site [chemical binding]; other site 1094497000162 Walker B motif; other site 1094497000163 arginine finger; other site 1094497000164 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1094497000165 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1094497000166 Surface antigen; Region: Bac_surface_Ag; pfam01103 1094497000167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1094497000168 Family of unknown function (DUF490); Region: DUF490; pfam04357 1094497000169 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1094497000170 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1094497000171 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1094497000172 Walker A/P-loop; other site 1094497000173 ATP binding site [chemical binding]; other site 1094497000174 Q-loop/lid; other site 1094497000175 ABC transporter signature motif; other site 1094497000176 Walker B; other site 1094497000177 D-loop; other site 1094497000178 H-loop/switch region; other site 1094497000179 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1094497000180 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1094497000181 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1094497000182 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1094497000183 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1094497000184 catalytic site [active] 1094497000185 Protein of unknown function DUF45; Region: DUF45; pfam01863 1094497000186 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1094497000187 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1094497000188 metal binding site [ion binding]; metal-binding site 1094497000189 dimer interface [polypeptide binding]; other site 1094497000190 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 1094497000191 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 1094497000192 FeS/SAM binding site; other site 1094497000193 HemN C-terminal domain; Region: HemN_C; pfam06969 1094497000194 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 1094497000195 active site 1094497000196 dimerization interface [polypeptide binding]; other site 1094497000197 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1094497000198 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1094497000199 heat shock protein GrpE; Provisional; Region: PRK14141 1094497000200 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 1094497000201 dimer interface [polypeptide binding]; other site 1094497000202 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1094497000203 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1094497000204 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1094497000205 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1094497000206 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1094497000207 dimerization domain swap beta strand [polypeptide binding]; other site 1094497000208 regulatory protein interface [polypeptide binding]; other site 1094497000209 active site 1094497000210 regulatory phosphorylation site [posttranslational modification]; other site 1094497000211 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1094497000212 active pocket/dimerization site; other site 1094497000213 active site 1094497000214 phosphorylation site [posttranslational modification] 1094497000215 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1094497000216 homohexamer subunit interaction site [polypeptide binding]; other site 1094497000217 Hpr binding site; other site 1094497000218 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 1094497000219 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 1094497000220 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1094497000221 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 1094497000222 dimerization interface [polypeptide binding]; other site 1094497000223 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 1094497000224 dimer interface [polypeptide binding]; other site 1094497000225 phosphorylation site [posttranslational modification] 1094497000226 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 1094497000227 ATP binding site [chemical binding]; other site 1094497000228 Mg2+ binding site [ion binding]; other site 1094497000229 G-X-G motif; other site 1094497000230 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1094497000231 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 1094497000232 active site 1094497000233 phosphorylation site [posttranslational modification] 1094497000234 intermolecular recognition site; other site 1094497000235 dimerization interface [polypeptide binding]; other site 1094497000236 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 1094497000237 DNA binding site [nucleotide binding] 1094497000238 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1094497000239 BON domain; Region: BON; pfam04972 1094497000240 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1094497000241 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1094497000242 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1094497000243 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1094497000244 nucleotide binding site [chemical binding]; other site 1094497000245 NEF interaction site [polypeptide binding]; other site 1094497000246 SBD interface [polypeptide binding]; other site 1094497000247 chaperone protein DnaJ; Provisional; Region: PRK10767 1094497000248 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 1094497000249 HSP70 interaction site [polypeptide binding]; other site 1094497000250 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1094497000251 substrate binding site [polypeptide binding]; other site 1094497000252 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1094497000253 Zn binding sites [ion binding]; other site 1094497000254 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1094497000255 dimer interface [polypeptide binding]; other site 1094497000256 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 1094497000257 homohexameric interface [polypeptide binding]; other site 1094497000258 feedback inhibition sensing region; other site 1094497000259 nucleotide binding site [chemical binding]; other site 1094497000260 N-acetyl-L-glutamate binding site [chemical binding]; other site 1094497000261 EamA-like transporter family; Region: EamA; pfam00892 1094497000262 GTP-binding protein LepA; Provisional; Region: PRK05433 1094497000263 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1094497000264 G1 box; other site 1094497000265 putative GEF interaction site [polypeptide binding]; other site 1094497000266 GTP/Mg2+ binding site [chemical binding]; other site 1094497000267 Switch I region; other site 1094497000268 G2 box; other site 1094497000269 G3 box; other site 1094497000270 Switch II region; other site 1094497000271 G4 box; other site 1094497000272 G5 box; other site 1094497000273 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 1094497000274 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 1094497000275 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1094497000276 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1094497000277 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 1094497000278 trimer interface [polypeptide binding]; other site 1094497000279 active site 1094497000280 substrate binding site [chemical binding]; other site 1094497000281 CoA binding site [chemical binding]; other site 1094497000282 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1094497000283 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1094497000284 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1094497000285 dimerization interface 3.5A [polypeptide binding]; other site 1094497000286 active site 1094497000287 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1094497000288 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1094497000289 putative active site [active] 1094497000290 substrate binding site [chemical binding]; other site 1094497000291 putative cosubstrate binding site; other site 1094497000292 catalytic site [active] 1094497000293 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1094497000294 substrate binding site [chemical binding]; other site 1094497000295 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 1094497000296 active site 1094497000297 catalytic residues [active] 1094497000298 metal binding site [ion binding]; metal-binding site 1094497000299 RmuC family; Region: RmuC; pfam02646 1094497000300 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 1094497000301 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1094497000302 catalytic residue [active] 1094497000303 Uncharacterized small protein [Function unknown]; Region: COG5568 1094497000304 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1094497000305 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 1094497000306 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1094497000307 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1094497000308 minor groove reading motif; other site 1094497000309 helix-hairpin-helix signature motif; other site 1094497000310 substrate binding pocket [chemical binding]; other site 1094497000311 active site 1094497000312 Ribosomal protein L35 [Translation, ribosomal structure and biogenesis]; Region: RpmI; COG0291 1094497000313 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1094497000314 23S rRNA binding site [nucleotide binding]; other site 1094497000315 L21 binding site [polypeptide binding]; other site 1094497000316 L13 binding site [polypeptide binding]; other site 1094497000317 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1094497000318 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1094497000319 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 1094497000320 dimer interface [polypeptide binding]; other site 1094497000321 motif 1; other site 1094497000322 active site 1094497000323 motif 2; other site 1094497000324 motif 3; other site 1094497000325 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1094497000326 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 1094497000327 putative tRNA-binding site [nucleotide binding]; other site 1094497000328 B3/4 domain; Region: B3_4; pfam03483 1094497000329 tRNA synthetase B5 domain; Region: B5; smart00874 1094497000330 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 1094497000331 dimer interface [polypeptide binding]; other site 1094497000332 motif 1; other site 1094497000333 motif 3; other site 1094497000334 motif 2; other site 1094497000335 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1094497000336 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1094497000337 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 1094497000338 metal binding site [ion binding]; metal-binding site 1094497000339 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1094497000340 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1094497000341 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1094497000342 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 1094497000343 ABC-ATPase subunit interface; other site 1094497000344 dimer interface [polypeptide binding]; other site 1094497000345 putative PBP binding regions; other site 1094497000346 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1094497000347 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 1094497000348 ABC-ATPase subunit interface; other site 1094497000349 dimer interface [polypeptide binding]; other site 1094497000350 putative PBP binding regions; other site 1094497000351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1094497000352 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 1094497000353 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 1094497000354 active site 1094497000355 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1094497000356 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 1094497000357 RNA binding site [nucleotide binding]; other site 1094497000358 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 1094497000359 RNA binding site [nucleotide binding]; other site 1094497000360 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 1094497000361 RNA binding site [nucleotide binding]; other site 1094497000362 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 1094497000363 RNA binding site [nucleotide binding]; other site 1094497000364 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 1094497000365 RNA binding site [nucleotide binding]; other site 1094497000366 S1_RPS1_repeat_ec6: 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_ec6; cd05691 1094497000367 RNA binding site [nucleotide binding]; other site 1094497000368 cytidylate kinase; Provisional; Region: cmk; PRK00023 1094497000369 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 1094497000370 CMP-binding site; other site 1094497000371 The sites determining sugar specificity; other site 1094497000372 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1094497000373 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 1094497000374 hinge; other site 1094497000375 active site 1094497000376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 1094497000377 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 1094497000378 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1094497000379 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1094497000380 MutS domain I; Region: MutS_I; pfam01624 1094497000381 MutS domain II; Region: MutS_II; pfam05188 1094497000382 MutS domain III; Region: MutS_III; pfam05192 1094497000383 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1094497000384 Walker A/P-loop; other site 1094497000385 ATP binding site [chemical binding]; other site 1094497000386 Q-loop/lid; other site 1094497000387 ABC transporter signature motif; other site 1094497000388 Walker B; other site 1094497000389 D-loop; other site 1094497000390 H-loop/switch region; other site 1094497000391 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1094497000392 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1094497000393 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1094497000394 putative NAD(P) binding site [chemical binding]; other site 1094497000395 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1094497000396 preprotein translocase subunit SecB; Validated; Region: PRK05751 1094497000397 SecA binding site; other site 1094497000398 Preprotein binding site; other site 1094497000399 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 1094497000400 Tim44-like domain; Region: Tim44; pfam04280 1094497000401 Smr domain; Region: Smr; pfam01713 1094497000402 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1094497000403 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 1094497000404 dimerization interface [polypeptide binding]; other site 1094497000405 domain crossover interface; other site 1094497000406 redox-dependent activation switch; other site 1094497000407 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 1094497000408 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 1094497000409 inhibitor-cofactor binding pocket; inhibition site 1094497000410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094497000411 catalytic residue [active] 1094497000412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 1094497000413 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1094497000414 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1094497000415 catalytic residues [active] 1094497000416 central insert; other site 1094497000417 heme exporter protein CcmC; Region: ccmC; TIGR01191 1094497000418 heme exporter protein CcmB; Region: ccmB; TIGR01190 1094497000419 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1094497000420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094497000421 Walker A/P-loop; other site 1094497000422 ATP binding site [chemical binding]; other site 1094497000423 Q-loop/lid; other site 1094497000424 ABC transporter signature motif; other site 1094497000425 Walker B; other site 1094497000426 D-loop; other site 1094497000427 H-loop/switch region; other site 1094497000428 aconitate hydratase; Validated; Region: PRK09277 1094497000429 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1094497000430 substrate binding site [chemical binding]; other site 1094497000431 ligand binding site [chemical binding]; other site 1094497000432 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 1094497000433 substrate binding site [chemical binding]; other site 1094497000434 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1094497000435 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1094497000436 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1094497000437 Bacterial dnaA protein; Region: Bac_DnaA; pfam00308 1094497000438 Walker A motif; other site 1094497000439 ATP binding site [chemical binding]; other site 1094497000440 Walker B motif; other site 1094497000441 arginine finger; other site 1094497000442 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 1094497000443 DnaA box-binding interface [nucleotide binding]; other site 1094497000444 DNA polymerase III subunit beta; Validated; Region: PRK05643 1094497000445 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 1094497000446 putative DNA binding surface [nucleotide binding]; other site 1094497000447 dimer interface [polypeptide binding]; other site 1094497000448 beta-clamp/clamp loader binding surface; other site 1094497000449 beta-clamp/translesion DNA polymerase binding surface; other site 1094497000450 recombination protein F; Reviewed; Region: recF; PRK00064 1094497000451 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094497000452 Walker A/P-loop; other site 1094497000453 ATP binding site [chemical binding]; other site 1094497000454 Q-loop/lid; other site 1094497000455 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094497000456 ABC transporter signature motif; other site 1094497000457 Walker B; other site 1094497000458 D-loop; other site 1094497000459 H-loop/switch region; other site 1094497000460 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 1094497000461 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1094497000462 trimer interface [polypeptide binding]; other site 1094497000463 active site 1094497000464 dimer interface [polypeptide binding]; other site 1094497000465 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1094497000466 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1094497000467 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1094497000468 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 1094497000469 D-pathway; other site 1094497000470 Putative ubiquinol binding site [chemical binding]; other site 1094497000471 Low-spin heme (heme b) binding site [chemical binding]; other site 1094497000472 Putative water exit pathway; other site 1094497000473 Binuclear center (heme o3/CuB) [ion binding]; other site 1094497000474 K-pathway; other site 1094497000475 Putative proton exit pathway; other site 1094497000476 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 1094497000477 Subunit I/III interface [polypeptide binding]; other site 1094497000478 Subunit III/IV interface [polypeptide binding]; other site 1094497000479 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1094497000480 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1094497000481 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1094497000482 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1094497000483 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 1094497000484 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1094497000485 NAD binding site [chemical binding]; other site 1094497000486 homotetramer interface [polypeptide binding]; other site 1094497000487 homodimer interface [polypeptide binding]; other site 1094497000488 substrate binding site [chemical binding]; other site 1094497000489 active site 1094497000490 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1094497000491 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 1094497000492 dimer interface [polypeptide binding]; other site 1094497000493 active site 1094497000494 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 1094497000495 active site 1 [active] 1094497000496 dimer interface [polypeptide binding]; other site 1094497000497 active site 2 [active] 1094497000498 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1094497000499 metal binding site 2 [ion binding]; metal-binding site 1094497000500 putative DNA binding helix; other site 1094497000501 metal binding site 1 [ion binding]; metal-binding site 1094497000502 dimer interface [polypeptide binding]; other site 1094497000503 structural Zn2+ binding site [ion binding]; other site 1094497000504 Bacterial SH3 domain; Region: SH3_4; pfam06347 1094497000505 Bacterial SH3 domain; Region: SH3_4; pfam06347 1094497000506 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1094497000507 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1094497000508 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1094497000509 Potassium binding sites [ion binding]; other site 1094497000510 Cesium cation binding sites [ion binding]; other site 1094497000511 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1094497000512 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1094497000513 HlyD family secretion protein; Region: HlyD_3; pfam13437 1094497000514 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1094497000515 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1094497000516 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 1094497000517 active site 1094497000518 dimer interface [polypeptide binding]; other site 1094497000519 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 1094497000520 dimer interface [polypeptide binding]; other site 1094497000521 active site 1094497000522 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1094497000523 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1094497000524 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1094497000525 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1094497000526 dimerization domain swap beta strand [polypeptide binding]; other site 1094497000527 regulatory protein interface [polypeptide binding]; other site 1094497000528 active site 1094497000529 regulatory phosphorylation site [posttranslational modification]; other site 1094497000530 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1094497000531 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1094497000532 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1094497000533 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1094497000534 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 1094497000535 non-specific DNA binding site [nucleotide binding]; other site 1094497000536 salt bridge; other site 1094497000537 sequence-specific DNA binding site [nucleotide binding]; other site 1094497000538 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1094497000539 trimer interface [polypeptide binding]; other site 1094497000540 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1094497000541 trimer interface [polypeptide binding]; other site 1094497000542 Haemagglutinin; Region: HIM; pfam05662 1094497000543 YadA-like C-terminal region; Region: YadA; pfam03895 1094497000544 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1094497000545 trimer interface [polypeptide binding]; other site 1094497000546 YadA-like C-terminal region; Region: YadA; pfam03895 1094497000547 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1094497000548 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1094497000549 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 1094497000550 S-adenosylmethionine binding site [chemical binding]; other site 1094497000551 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1094497000552 GTP1/OBG; Region: GTP1_OBG; pfam01018 1094497000553 Obg GTPase; Region: Obg; cd01898 1094497000554 G1 box; other site 1094497000555 GTP/Mg2+ binding site [chemical binding]; other site 1094497000556 Switch I region; other site 1094497000557 G2 box; other site 1094497000558 G3 box; other site 1094497000559 Switch II region; other site 1094497000560 G4 box; other site 1094497000561 G5 box; other site 1094497000562 gamma-glutamyl kinase; Provisional; Region: PRK05429 1094497000563 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 1094497000564 nucleotide binding site [chemical binding]; other site 1094497000565 homotetrameric interface [polypeptide binding]; other site 1094497000566 putative phosphate binding site [ion binding]; other site 1094497000567 putative allosteric binding site; other site 1094497000568 PUA domain; Region: PUA; pfam01472 1094497000569 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1094497000570 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1094497000571 putative catalytic cysteine [active] 1094497000572 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1094497000573 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1094497000574 active site 1094497000575 (T/H)XGH motif; other site 1094497000576 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1094497000577 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1094497000578 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1094497000579 Peptidase family M23; Region: Peptidase_M23; pfam01551 1094497000580 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1094497000581 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1094497000582 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 1094497000583 protein binding site [polypeptide binding]; other site 1094497000584 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1094497000585 Catalytic dyad [active] 1094497000586 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 1094497000587 putative active site [active] 1094497000588 Ap4A binding site [chemical binding]; other site 1094497000589 nudix motif; other site 1094497000590 putative metal binding site [ion binding]; other site 1094497000591 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1094497000592 YGGT family; Region: YGGT; pfam02325 1094497000593 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 1094497000594 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 1094497000595 dimer interface [polypeptide binding]; other site 1094497000596 substrate binding site [chemical binding]; other site 1094497000597 metal binding sites [ion binding]; metal-binding site 1094497000598 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1094497000599 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1094497000600 G1 box; other site 1094497000601 putative GEF interaction site [polypeptide binding]; other site 1094497000602 GTP/Mg2+ binding site [chemical binding]; other site 1094497000603 Switch I region; other site 1094497000604 G2 box; other site 1094497000605 G3 box; other site 1094497000606 Switch II region; other site 1094497000607 G4 box; other site 1094497000608 G5 box; other site 1094497000609 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 1094497000610 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 1094497000611 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1094497000612 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1094497000613 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 1094497000614 Divalent cation transporter; Region: MgtE; pfam01769 1094497000615 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1094497000616 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1094497000617 active site 1094497000618 Zn binding site [ion binding]; other site 1094497000619 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 1094497000620 active site 1094497000621 catalytic triad [active] 1094497000622 oxyanion hole [active] 1094497000623 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1094497000624 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 1094497000625 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1094497000626 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1094497000627 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1094497000628 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 1094497000629 putative active site [active] 1094497000630 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 1094497000631 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1094497000632 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 1094497000633 active site 1094497000634 phosphorylation site [posttranslational modification] 1094497000635 intermolecular recognition site; other site 1094497000636 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 1094497000637 Walker A motif; other site 1094497000638 ATP binding site [chemical binding]; other site 1094497000639 Walker B motif; other site 1094497000640 arginine finger; other site 1094497000641 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1094497000642 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1094497000643 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1094497000644 putative active site [active] 1094497000645 catalytic site [active] 1094497000646 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1094497000647 putative active site [active] 1094497000648 catalytic site [active] 1094497000649 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1094497000650 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 1094497000651 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 1094497000652 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 1094497000653 active site 1094497000654 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1094497000655 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1094497000656 GMP synthase; Reviewed; Region: guaA; PRK00074 1094497000657 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1094497000658 AMP/PPi binding site [chemical binding]; other site 1094497000659 candidate oxyanion hole; other site 1094497000660 catalytic triad [active] 1094497000661 potential glutamine specificity residues [chemical binding]; other site 1094497000662 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 1094497000663 ATP Binding subdomain [chemical binding]; other site 1094497000664 Ligand Binding sites [chemical binding]; other site 1094497000665 Dimerization subdomain; other site 1094497000666 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1094497000667 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1094497000668 active site 1094497000669 catalytic site [active] 1094497000670 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1094497000671 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1094497000672 Walker A/P-loop; other site 1094497000673 ATP binding site [chemical binding]; other site 1094497000674 Q-loop/lid; other site 1094497000675 ABC transporter signature motif; other site 1094497000676 Walker B; other site 1094497000677 D-loop; other site 1094497000678 H-loop/switch region; other site 1094497000679 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1094497000680 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 1094497000681 dimer interface [polypeptide binding]; other site 1094497000682 conserved gate region; other site 1094497000683 putative PBP binding loops; other site 1094497000684 ABC-ATPase subunit interface; other site 1094497000685 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1094497000686 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 1094497000687 dimer interface [polypeptide binding]; other site 1094497000688 conserved gate region; other site 1094497000689 putative PBP binding loops; other site 1094497000690 ABC-ATPase subunit interface; other site 1094497000691 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1094497000692 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1094497000693 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1094497000694 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 1094497000695 metal binding site [ion binding]; metal-binding site 1094497000696 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1094497000697 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 1094497000698 ABC-ATPase subunit interface; other site 1094497000699 dimer interface [polypeptide binding]; other site 1094497000700 putative PBP binding regions; other site 1094497000701 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1094497000702 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1094497000703 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 1094497000704 catalytic residues [active] 1094497000705 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1094497000706 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1094497000707 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1094497000708 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1094497000709 active site 1094497000710 dimer interface [polypeptide binding]; other site 1094497000711 catalytic residues [active] 1094497000712 effector binding site; other site 1094497000713 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1094497000714 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1094497000715 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1094497000716 dimer interface [polypeptide binding]; other site 1094497000717 putative radical transfer pathway; other site 1094497000718 diiron center [ion binding]; other site 1094497000719 tyrosyl radical; other site 1094497000720 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1094497000721 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 1094497000722 S-adenosylmethionine binding site [chemical binding]; other site 1094497000723 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1094497000724 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1094497000725 RF-1 domain; Region: RF-1; pfam00472 1094497000726 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1094497000727 metal binding site 2 [ion binding]; metal-binding site 1094497000728 putative DNA binding helix; other site 1094497000729 metal binding site 1 [ion binding]; metal-binding site 1094497000730 dimer interface [polypeptide binding]; other site 1094497000731 structural Zn2+ binding site [ion binding]; other site 1094497000732 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1094497000733 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1094497000734 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1094497000735 SEC-C motif; Region: SEC-C; pfam02810 1094497000736 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 1094497000737 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1094497000738 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 1094497000739 heterotetramer interface [polypeptide binding]; other site 1094497000740 active site pocket [active] 1094497000741 cleavage site 1094497000742 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 1094497000743 active site 1094497000744 8-oxo-dGMP binding site [chemical binding]; other site 1094497000745 nudix motif; other site 1094497000746 metal binding site [ion binding]; metal-binding site 1094497000747 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1094497000748 NlpC/P60 family; Region: NLPC_P60; cl17555 1094497000749 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 1094497000750 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 1094497000751 interface (dimer of trimers) [polypeptide binding]; other site 1094497000752 Substrate-binding/catalytic site; other site 1094497000753 Zn-binding sites [ion binding]; other site 1094497000754 pantothenate kinase; Provisional; Region: PRK05439 1094497000755 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 1094497000756 ATP-binding site [chemical binding]; other site 1094497000757 CoA-binding site [chemical binding]; other site 1094497000758 Mg2+-binding site [ion binding]; other site 1094497000759 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1094497000760 active site 1094497000761 homotetramer interface [polypeptide binding]; other site 1094497000762 homodimer interface [polypeptide binding]; other site 1094497000763 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 1094497000764 active site 1094497000765 HslU subunit interaction site [polypeptide binding]; other site 1094497000766 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1094497000767 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 1094497000768 Walker A motif; other site 1094497000769 ATP binding site [chemical binding]; other site 1094497000770 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1094497000771 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1094497000772 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1094497000773 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 1094497000774 S-adenosylmethionine binding site [chemical binding]; other site 1094497000775 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1094497000776 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1094497000777 RNase E interface [polypeptide binding]; other site 1094497000778 trimer interface [polypeptide binding]; other site 1094497000779 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1094497000780 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1094497000781 RNase E interface [polypeptide binding]; other site 1094497000782 trimer interface [polypeptide binding]; other site 1094497000783 active site 1094497000784 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 1094497000785 putative nucleic acid binding region [nucleotide binding]; other site 1094497000786 G-X-X-G motif; other site 1094497000787 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 1094497000788 RNA binding site [nucleotide binding]; other site 1094497000789 domain interface; other site 1094497000790 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 1094497000791 16S/18S rRNA binding site [nucleotide binding]; other site 1094497000792 S13e-L30e interaction site [polypeptide binding]; other site 1094497000793 25S rRNA binding site [nucleotide binding]; other site 1094497000794 Transmembrane secretion effector; Region: MFS_3; pfam05977 1094497000795 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 1094497000796 putative substrate translocation pore; other site 1094497000797 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 1094497000798 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1094497000799 RNA binding site [nucleotide binding]; other site 1094497000800 active site 1094497000801 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1094497000802 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1094497000803 translation initiation factor IF-2; Region: IF-2; TIGR00487 1094497000804 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1094497000805 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1094497000806 G1 box; other site 1094497000807 putative GEF interaction site [polypeptide binding]; other site 1094497000808 GTP/Mg2+ binding site [chemical binding]; other site 1094497000809 Switch I region; other site 1094497000810 G2 box; other site 1094497000811 G3 box; other site 1094497000812 Switch II region; other site 1094497000813 G4 box; other site 1094497000814 G5 box; other site 1094497000815 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 1094497000816 Translation-initiation factor 2; Region: IF-2; pfam11987 1094497000817 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 1094497000818 hypothetical protein; Provisional; Region: PRK09190 1094497000819 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 1094497000820 putative RNA binding cleft [nucleotide binding]; other site 1094497000821 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1094497000822 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1094497000823 NusA N-terminal domain; Region: NusA_N; pfam08529 1094497000824 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 1094497000825 RNA binding site [nucleotide binding]; other site 1094497000826 homodimer interface [polypeptide binding]; other site 1094497000827 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 1094497000828 G-X-X-G motif; other site 1094497000829 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 1094497000830 G-X-X-G motif; other site 1094497000831 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1094497000832 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1094497000833 Sm and related proteins; Region: Sm_like; cl00259 1094497000834 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1094497000835 putative oligomer interface [polypeptide binding]; other site 1094497000836 putative RNA binding site [nucleotide binding]; other site 1094497000837 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1094497000838 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1094497000839 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1094497000840 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1094497000841 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1094497000842 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094497000843 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 1094497000844 non-specific DNA binding site [nucleotide binding]; other site 1094497000845 salt bridge; other site 1094497000846 sequence-specific DNA binding site [nucleotide binding]; other site 1094497000847 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1094497000848 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1094497000849 putative active site [active] 1094497000850 catalytic triad [active] 1094497000851 putative dimer interface [polypeptide binding]; other site 1094497000852 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1094497000853 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 1094497000854 Transporter associated domain; Region: CorC_HlyC; smart01091 1094497000855 metal-binding heat shock protein; Provisional; Region: PRK00016 1094497000856 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1094497000857 PhoH-like protein; Region: PhoH; pfam02562 1094497000858 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1094497000859 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1094497000860 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 1094497000861 FeS/SAM binding site; other site 1094497000862 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1094497000863 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1094497000864 Coenzyme A binding pocket [chemical binding]; other site 1094497000865 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1094497000866 Glycoprotease family; Region: Peptidase_M22; pfam00814 1094497000867 Predicted membrane protein [Function unknown]; Region: COG2855 1094497000868 recombination protein RecR; Reviewed; Region: recR; PRK00076 1094497000869 RecR protein; Region: RecR; pfam02132 1094497000870 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 1094497000871 putative active site [active] 1094497000872 putative metal-binding site [ion binding]; other site 1094497000873 tetramer interface [polypeptide binding]; other site 1094497000874 hypothetical protein; Validated; Region: PRK00153 1094497000875 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 1094497000876 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 1094497000877 Walker A motif; other site 1094497000878 ATP binding site [chemical binding]; other site 1094497000879 Walker B motif; other site 1094497000880 arginine finger; other site 1094497000881 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1094497000882 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 1094497000883 prephenate dehydratase; Provisional; Region: PRK11899 1094497000884 Prephenate dehydratase; Region: PDT; pfam00800 1094497000885 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1094497000886 putative L-Phe binding site [chemical binding]; other site 1094497000887 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1094497000888 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1094497000889 Ligand binding site; other site 1094497000890 oligomer interface; other site 1094497000891 Cytochrome c; Region: Cytochrom_C; cl11414 1094497000892 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1094497000893 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 1094497000894 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1094497000895 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 1094497000896 ATP binding site [chemical binding]; other site 1094497000897 substrate interface [chemical binding]; other site 1094497000898 glutathione synthetase; Provisional; Region: PRK05246 1094497000899 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1094497000900 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1094497000901 PBP superfamily domain; Region: PBP_like_2; pfam12849 1094497000902 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1094497000903 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1094497000904 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 1094497000905 dimer interface [polypeptide binding]; other site 1094497000906 conserved gate region; other site 1094497000907 putative PBP binding loops; other site 1094497000908 ABC-ATPase subunit interface; other site 1094497000909 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1094497000910 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1094497000911 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 1094497000912 dimer interface [polypeptide binding]; other site 1094497000913 conserved gate region; other site 1094497000914 putative PBP binding loops; other site 1094497000915 ABC-ATPase subunit interface; other site 1094497000916 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1094497000917 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1094497000918 Walker A/P-loop; other site 1094497000919 ATP binding site [chemical binding]; other site 1094497000920 Q-loop/lid; other site 1094497000921 ABC transporter signature motif; other site 1094497000922 Walker B; other site 1094497000923 D-loop; other site 1094497000924 H-loop/switch region; other site 1094497000925 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1094497000926 PhoU domain; Region: PhoU; pfam01895 1094497000927 PhoU domain; Region: PhoU; pfam01895 1094497000928 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1094497000929 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1094497000930 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1094497000931 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1094497000932 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1094497000933 DNA binding site [nucleotide binding] 1094497000934 catalytic residue [active] 1094497000935 H2TH interface [polypeptide binding]; other site 1094497000936 putative catalytic residues [active] 1094497000937 turnover-facilitating residue; other site 1094497000938 intercalation triad [nucleotide binding]; other site 1094497000939 8OG recognition residue [nucleotide binding]; other site 1094497000940 putative reading head residues; other site 1094497000941 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1094497000942 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1094497000943 hypothetical protein; Validated; Region: PRK09104 1094497000944 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 1094497000945 metal binding site [ion binding]; metal-binding site 1094497000946 putative dimer interface [polypeptide binding]; other site 1094497000947 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1094497000948 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1094497000949 catalytic site [active] 1094497000950 putative active site [active] 1094497000951 putative substrate binding site [chemical binding]; other site 1094497000952 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094497000953 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094497000954 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094497000955 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094497000956 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1094497000957 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094497000958 active site 1094497000959 HIGH motif; other site 1094497000960 nucleotide binding site [chemical binding]; other site 1094497000961 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1094497000962 active site 1094497000963 KMSKS motif; other site 1094497000964 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1094497000965 tRNA binding surface [nucleotide binding]; other site 1094497000966 anticodon binding site; other site 1094497000967 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 1094497000968 nucleoside/Zn binding site; other site 1094497000969 dimer interface [polypeptide binding]; other site 1094497000970 catalytic motif [active] 1094497000971 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1094497000972 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 1094497000973 RNA binding surface [nucleotide binding]; other site 1094497000974 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1094497000975 active site 1094497000976 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1094497000977 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 1094497000978 S-adenosylmethionine binding site [chemical binding]; other site 1094497000979 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1094497000980 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 1094497000981 phosphate binding site [ion binding]; other site 1094497000982 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 1094497000983 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 1094497000984 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1094497000985 trimer interface [polypeptide binding]; other site 1094497000986 active site 1094497000987 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 1094497000988 trimer interface [polypeptide binding]; other site 1094497000989 active site 1094497000990 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1094497000991 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 1094497000992 ATP binding site [chemical binding]; other site 1094497000993 Mg2+ binding site [ion binding]; other site 1094497000994 G-X-G motif; other site 1094497000995 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1094497000996 ATP binding site [chemical binding]; other site 1094497000997 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1094497000998 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; pfam09866 1094497000999 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1094497001000 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1094497001001 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1094497001002 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1094497001003 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 1094497001004 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1094497001005 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 1094497001006 active site 1094497001007 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1094497001008 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1094497001009 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1094497001010 catalytic residues [active] 1094497001011 catalytic nucleophile [active] 1094497001012 Presynaptic Site I dimer interface [polypeptide binding]; other site 1094497001013 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1094497001014 Synaptic Flat tetramer interface [polypeptide binding]; other site 1094497001015 Synaptic Site I dimer interface [polypeptide binding]; other site 1094497001016 DNA binding site [nucleotide binding] 1094497001017 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 1094497001018 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 1094497001019 Walker A motif; other site 1094497001020 ATP binding site [chemical binding]; other site 1094497001021 Walker B motif; other site 1094497001022 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1094497001023 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1094497001024 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1094497001025 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1094497001026 active site 1094497001027 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1094497001028 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 1094497001029 ATP binding site [chemical binding]; other site 1094497001030 Walker A motif; other site 1094497001031 hexamer interface [polypeptide binding]; other site 1094497001032 Walker B motif; other site 1094497001033 TrbC/VIRB2 family; Region: TrbC; cl01583 1094497001034 conjugal transfer protein TrbD; Provisional; Region: PRK13823 1094497001035 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1094497001036 AAA-like domain; Region: AAA_10; pfam12846 1094497001037 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1094497001038 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094497001039 Walker B; other site 1094497001040 D-loop; other site 1094497001041 H-loop/switch region; other site 1094497001042 P-type conjugative transfer protein TrbJ; Region: TrbJ_Ti; TIGR02780 1094497001043 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1094497001044 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 1094497001045 non-specific DNA binding site [nucleotide binding]; other site 1094497001046 salt bridge; other site 1094497001047 sequence-specific DNA binding site [nucleotide binding]; other site 1094497001048 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1094497001049 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094497001050 replicative DNA helicase; Provisional; Region: PRK09165 1094497001051 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1094497001052 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 1094497001053 Walker A motif; other site 1094497001054 ATP binding site [chemical binding]; other site 1094497001055 Walker B motif; other site 1094497001056 DNA binding loops [nucleotide binding] 1094497001057 Helix-turn-helix domain; Region: HTH_17; pfam12728 1094497001058 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 1094497001059 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1094497001060 catalytic residue [active] 1094497001061 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1094497001062 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 1094497001063 GDP-binding site [chemical binding]; other site 1094497001064 ACT binding site; other site 1094497001065 IMP binding site; other site 1094497001066 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1094497001067 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1094497001068 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1094497001069 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 1094497001070 DNA binding residues [nucleotide binding] 1094497001071 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1094497001072 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 1094497001073 RNA binding surface [nucleotide binding]; other site 1094497001074 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1094497001075 active site 1094497001076 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1094497001077 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1094497001078 NAD binding site [chemical binding]; other site 1094497001079 catalytic residues [active] 1094497001080 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1094497001081 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1094497001082 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1094497001083 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1094497001084 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 1094497001085 phosphorylation site [posttranslational modification] 1094497001086 dimer interface [polypeptide binding]; other site 1094497001087 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 1094497001088 ATP binding site [chemical binding]; other site 1094497001089 Mg2+ binding site [ion binding]; other site 1094497001090 G-X-G motif; other site 1094497001091 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 1094497001092 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1094497001093 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1094497001094 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 1094497001095 quinone interaction residues [chemical binding]; other site 1094497001096 active site 1094497001097 catalytic residues [active] 1094497001098 FMN binding site [chemical binding]; other site 1094497001099 substrate binding site [chemical binding]; other site 1094497001100 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1094497001101 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1094497001102 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1094497001103 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1094497001104 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1094497001105 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1094497001106 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1094497001107 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1094497001108 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 1094497001109 putative active site [active] 1094497001110 Dehydratase family; Region: ILVD_EDD; cl00340 1094497001111 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1094497001112 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1094497001113 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1094497001114 homodimer interface [polypeptide binding]; other site 1094497001115 NADP binding site [chemical binding]; other site 1094497001116 substrate binding site [chemical binding]; other site 1094497001117 AsmA family; Region: AsmA; pfam05170 1094497001118 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1094497001119 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1094497001120 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 1094497001121 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1094497001122 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1094497001123 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1094497001124 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 1094497001125 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1094497001126 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1094497001127 active site 1094497001128 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 1094497001129 GSH binding site [chemical binding]; other site 1094497001130 catalytic residues [active] 1094497001131 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1094497001132 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1094497001133 aspartate kinase; Reviewed; Region: PRK06635 1094497001134 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 1094497001135 putative nucleotide binding site [chemical binding]; other site 1094497001136 putative catalytic residues [active] 1094497001137 putative Mg ion binding site [ion binding]; other site 1094497001138 putative aspartate binding site [chemical binding]; other site 1094497001139 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 1094497001140 putative allosteric regulatory site; other site 1094497001141 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 1094497001142 putative allosteric regulatory residue; other site 1094497001143 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1094497001144 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 1094497001145 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1094497001146 TrkA-C domain; Region: TrkA_C; pfam02080 1094497001147 TrkA-C domain; Region: TrkA_C; pfam02080 1094497001148 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 1094497001149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1094497001150 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1094497001151 GTP-binding protein Der; Reviewed; Region: PRK00093 1094497001152 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1094497001153 G1 box; other site 1094497001154 GTP/Mg2+ binding site [chemical binding]; other site 1094497001155 Switch I region; other site 1094497001156 G2 box; other site 1094497001157 Switch II region; other site 1094497001158 G3 box; other site 1094497001159 G4 box; other site 1094497001160 G5 box; other site 1094497001161 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1094497001162 G1 box; other site 1094497001163 GTP/Mg2+ binding site [chemical binding]; other site 1094497001164 Switch I region; other site 1094497001165 G2 box; other site 1094497001166 G3 box; other site 1094497001167 Switch II region; other site 1094497001168 G4 box; other site 1094497001169 G5 box; other site 1094497001170 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 1094497001171 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1094497001172 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1094497001173 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1094497001174 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 1094497001175 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1094497001176 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 1094497001177 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1094497001178 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1094497001179 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 1094497001180 dimer interface [polypeptide binding]; other site 1094497001181 motif 1; other site 1094497001182 active site 1094497001183 motif 2; other site 1094497001184 motif 3; other site 1094497001185 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 1094497001186 binding surface 1094497001187 TPR motif; other site 1094497001188 TPR repeat; Region: TPR_11; pfam13414 1094497001189 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 1094497001190 binding surface 1094497001191 TPR motif; other site 1094497001192 TPR repeat; Region: TPR_11; pfam13414 1094497001193 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1094497001194 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1094497001195 substrate binding pocket [chemical binding]; other site 1094497001196 chain length determination region; other site 1094497001197 substrate-Mg2+ binding site; other site 1094497001198 catalytic residues [active] 1094497001199 aspartate-rich region 1; other site 1094497001200 active site lid residues [active] 1094497001201 aspartate-rich region 2; other site 1094497001202 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1094497001203 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 1094497001204 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1094497001205 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1094497001206 tandem repeat interface [polypeptide binding]; other site 1094497001207 oligomer interface [polypeptide binding]; other site 1094497001208 active site residues [active] 1094497001209 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 1094497001210 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1094497001211 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1094497001212 RNA/DNA hybrid binding site [nucleotide binding]; other site 1094497001213 active site 1094497001214 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1094497001215 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1094497001216 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1094497001217 FAD binding domain; Region: FAD_binding_4; pfam01565 1094497001218 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1094497001219 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1094497001220 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1094497001221 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1094497001222 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 1094497001223 UbiA prenyltransferase family; Region: UbiA; pfam01040 1094497001224 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1094497001225 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1094497001226 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1094497001227 chaperone protein DnaJ; Provisional; Region: PRK14299 1094497001228 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 1094497001229 HSP70 interaction site [polypeptide binding]; other site 1094497001230 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1094497001231 dimer interface [polypeptide binding]; other site 1094497001232 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 1094497001233 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1094497001234 NAD binding site [chemical binding]; other site 1094497001235 homotetramer interface [polypeptide binding]; other site 1094497001236 homodimer interface [polypeptide binding]; other site 1094497001237 substrate binding site [chemical binding]; other site 1094497001238 active site 1094497001239 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1094497001240 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1094497001241 Tetramer interface [polypeptide binding]; other site 1094497001242 active site 1094497001243 FMN-binding site [chemical binding]; other site 1094497001244 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1094497001245 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1094497001246 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 1094497001247 dimerization interface [polypeptide binding]; other site 1094497001248 active site 1094497001249 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1094497001250 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1094497001251 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 1094497001252 TPP-binding site; other site 1094497001253 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 1094497001254 PYR/PP interface [polypeptide binding]; other site 1094497001255 dimer interface [polypeptide binding]; other site 1094497001256 TPP binding site [chemical binding]; other site 1094497001257 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1094497001258 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1094497001259 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 1094497001260 RNA binding surface [nucleotide binding]; other site 1094497001261 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 1094497001262 S-adenosylmethionine binding site [chemical binding]; other site 1094497001263 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1094497001264 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1094497001265 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1094497001266 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1094497001267 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1094497001268 UbiA prenyltransferase family; Region: UbiA; pfam01040 1094497001269 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1094497001270 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1094497001271 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1094497001272 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1094497001273 putative active site [active] 1094497001274 putative substrate binding site [chemical binding]; other site 1094497001275 ATP binding site [chemical binding]; other site 1094497001276 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1094497001277 RNA/DNA hybrid binding site [nucleotide binding]; other site 1094497001278 active site 1094497001279 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1094497001280 hypothetical protein; Validated; Region: PRK00228 1094497001281 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1094497001282 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 1094497001283 PAS fold; Region: PAS_3; pfam08447 1094497001284 putative active site [active] 1094497001285 heme pocket [chemical binding]; other site 1094497001286 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1094497001287 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1094497001288 metal binding site [ion binding]; metal-binding site 1094497001289 active site 1094497001290 I-site; other site 1094497001291 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 1094497001292 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1094497001293 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1094497001294 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1094497001295 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1094497001296 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1094497001297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094497001298 catalytic residue [active] 1094497001299 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1094497001300 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 1094497001301 motif II; other site 1094497001302 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1094497001303 DNA methylase; Region: N6_N4_Mtase; pfam01555 1094497001304 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1094497001305 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1094497001306 minor groove reading motif; other site 1094497001307 helix-hairpin-helix signature motif; other site 1094497001308 substrate binding pocket [chemical binding]; other site 1094497001309 active site 1094497001310 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1094497001311 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 1094497001312 DNA binding and oxoG recognition site [nucleotide binding] 1094497001313 Protein of unknown function (DUF721); Region: DUF721; cl02324 1094497001314 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1094497001315 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1094497001316 catalytic residues [active] 1094497001317 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1094497001318 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1094497001319 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1094497001320 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1094497001321 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1094497001322 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1094497001323 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1094497001324 Predicted transcriptional regulator [Transcription]; Region: COG4957 1094497001325 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1094497001326 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1094497001327 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1094497001328 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1094497001329 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1094497001330 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 1094497001331 putative FMN binding site [chemical binding]; other site 1094497001332 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1094497001333 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1094497001334 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1094497001335 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1094497001336 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1094497001337 Sporulation related domain; Region: SPOR; pfam05036 1094497001338 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1094497001339 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1094497001340 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 1094497001341 Walker A motif; other site 1094497001342 ATP binding site [chemical binding]; other site 1094497001343 Walker B motif; other site 1094497001344 arginine finger; other site 1094497001345 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 1094497001346 Walker A motif; other site 1094497001347 ATP binding site [chemical binding]; other site 1094497001348 Walker B motif; other site 1094497001349 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1094497001350 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 1094497001351 HIT family signature motif; other site 1094497001352 catalytic residue [active] 1094497001353 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 1094497001354 homotrimer interaction site [polypeptide binding]; other site 1094497001355 putative active site [active] 1094497001356 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 1094497001357 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 1094497001358 rRNA interaction site [nucleotide binding]; other site 1094497001359 S8 interaction site; other site 1094497001360 putative laminin-1 binding site; other site 1094497001361 elongation factor Ts; Provisional; Region: tsf; PRK09377 1094497001362 UBA/TS-N domain; Region: UBA; pfam00627 1094497001363 Elongation factor TS; Region: EF_TS; pfam00889 1094497001364 Elongation factor TS; Region: EF_TS; pfam00889 1094497001365 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 1094497001366 putative nucleotide binding site [chemical binding]; other site 1094497001367 uridine monophosphate binding site [chemical binding]; other site 1094497001368 homohexameric interface [polypeptide binding]; other site 1094497001369 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1094497001370 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 1094497001371 hinge region; other site 1094497001372 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1094497001373 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1094497001374 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1094497001375 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 1094497001376 active site 1094497001377 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 1094497001378 protein binding site [polypeptide binding]; other site 1094497001379 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 1094497001380 putative substrate binding region [chemical binding]; other site 1094497001381 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1094497001382 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1094497001383 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1094497001384 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1094497001385 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1094497001386 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1094497001387 Surface antigen; Region: Bac_surface_Ag; pfam01103 1094497001388 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1094497001389 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1094497001390 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 1094497001391 trimer interface [polypeptide binding]; other site 1094497001392 active site 1094497001393 UDP-GlcNAc binding site [chemical binding]; other site 1094497001394 lipid binding site [chemical binding]; lipid-binding site 1094497001395 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 1094497001396 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1094497001397 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 1094497001398 active site 1094497001399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1094497001400 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1094497001401 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1094497001402 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1094497001403 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1094497001404 Walker A/P-loop; other site 1094497001405 ATP binding site [chemical binding]; other site 1094497001406 Q-loop/lid; other site 1094497001407 ABC transporter signature motif; other site 1094497001408 Walker B; other site 1094497001409 D-loop; other site 1094497001410 H-loop/switch region; other site 1094497001411 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1094497001412 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 1094497001413 dimer interface [polypeptide binding]; other site 1094497001414 conserved gate region; other site 1094497001415 putative PBP binding loops; other site 1094497001416 ABC-ATPase subunit interface; other site 1094497001417 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 1094497001418 dimer interface [polypeptide binding]; other site 1094497001419 conserved gate region; other site 1094497001420 putative PBP binding loops; other site 1094497001421 ABC-ATPase subunit interface; other site 1094497001422 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 1094497001423 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1094497001424 substrate binding pocket [chemical binding]; other site 1094497001425 membrane-bound complex binding site; other site 1094497001426 hinge residues; other site 1094497001427 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 1094497001428 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1094497001429 substrate binding pocket [chemical binding]; other site 1094497001430 membrane-bound complex binding site; other site 1094497001431 hinge residues; other site 1094497001432 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 1094497001433 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1094497001434 dimer interface [polypeptide binding]; other site 1094497001435 active site 1094497001436 citrylCoA binding site [chemical binding]; other site 1094497001437 NADH binding [chemical binding]; other site 1094497001438 cationic pore residues; other site 1094497001439 oxalacetate/citrate binding site [chemical binding]; other site 1094497001440 coenzyme A binding site [chemical binding]; other site 1094497001441 catalytic triad [active] 1094497001442 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1094497001443 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1094497001444 active site 1094497001445 HIGH motif; other site 1094497001446 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1094497001447 active site 1094497001448 KMSKS motif; other site 1094497001449 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1094497001450 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1094497001451 Competence protein; Region: Competence; pfam03772 1094497001452 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 1094497001453 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094497001454 active site 1094497001455 dimer interface [polypeptide binding]; other site 1094497001456 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1094497001457 glutathione reductase; Validated; Region: PRK06116 1094497001458 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1094497001459 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1094497001460 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1094497001461 NAD synthetase; Provisional; Region: PRK13981 1094497001462 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1094497001463 multimer interface [polypeptide binding]; other site 1094497001464 active site 1094497001465 catalytic triad [active] 1094497001466 protein interface 1 [polypeptide binding]; other site 1094497001467 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 1094497001468 homodimer interface [polypeptide binding]; other site 1094497001469 NAD binding pocket [chemical binding]; other site 1094497001470 ATP binding pocket [chemical binding]; other site 1094497001471 Mg binding site [ion binding]; other site 1094497001472 active-site loop [active] 1094497001473 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1094497001474 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1094497001475 active site 1094497001476 HIGH motif; other site 1094497001477 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1094497001478 active site 1094497001479 KMSKS motif; other site 1094497001480 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1094497001481 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 1094497001482 ATP binding site [chemical binding]; other site 1094497001483 Mg++ binding site [ion binding]; other site 1094497001484 motif III; other site 1094497001485 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 1094497001486 nucleotide binding region [chemical binding]; other site 1094497001487 ATP-binding site [chemical binding]; other site 1094497001488 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1094497001489 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1094497001490 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1094497001491 active sites [active] 1094497001492 tetramer interface [polypeptide binding]; other site 1094497001493 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1094497001494 Spore germination protein; Region: Spore_permease; cl17796 1094497001495 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1094497001496 Predicted integral membrane protein [Function unknown]; Region: COG5436 1094497001497 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1094497001498 Transglycosylase; Region: Transgly; pfam00912 1094497001499 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1094497001500 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1094497001501 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1094497001502 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 1094497001503 active site 1094497001504 phosphorylation site [posttranslational modification] 1094497001505 intermolecular recognition site; other site 1094497001506 dimerization interface [polypeptide binding]; other site 1094497001507 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 1094497001508 DNA binding site [nucleotide binding] 1094497001509 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1094497001510 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 1094497001511 ATP binding site [chemical binding]; other site 1094497001512 Mg2+ binding site [ion binding]; other site 1094497001513 G-X-G motif; other site 1094497001514 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 1094497001515 TPR motif; other site 1094497001516 binding surface 1094497001517 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1094497001518 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1094497001519 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1094497001520 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1094497001521 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1094497001522 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 1094497001523 protein binding site [polypeptide binding]; other site 1094497001524 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 1094497001525 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1094497001526 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 1094497001527 active site 1094497001528 phosphorylation site [posttranslational modification] 1094497001529 intermolecular recognition site; other site 1094497001530 dimerization interface [polypeptide binding]; other site 1094497001531 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 1094497001532 DNA binding site [nucleotide binding] 1094497001533 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1094497001534 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 1094497001535 dimerization interface [polypeptide binding]; other site 1094497001536 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 1094497001537 dimer interface [polypeptide binding]; other site 1094497001538 phosphorylation site [posttranslational modification] 1094497001539 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 1094497001540 ATP binding site [chemical binding]; other site 1094497001541 Mg2+ binding site [ion binding]; other site 1094497001542 G-X-G motif; other site 1094497001543 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 1094497001544 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1094497001545 metal binding triad; other site 1094497001546 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1094497001547 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1094497001548 metal binding triad; other site 1094497001549 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094497001550 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 1094497001551 PAS fold; Region: PAS_3; pfam08447 1094497001552 putative active site [active] 1094497001553 heme pocket [chemical binding]; other site 1094497001554 PAS fold; Region: PAS_7; pfam12860 1094497001555 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1094497001556 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 1094497001557 dimer interface [polypeptide binding]; other site 1094497001558 phosphorylation site [posttranslational modification] 1094497001559 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 1094497001560 ATP binding site [chemical binding]; other site 1094497001561 Mg2+ binding site [ion binding]; other site 1094497001562 G-X-G motif; other site 1094497001563 aminopeptidase N; Provisional; Region: pepN; PRK14015 1094497001564 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1094497001565 active site 1094497001566 Zn binding site [ion binding]; other site 1094497001567 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1094497001568 Fe-S cluster binding site [ion binding]; other site 1094497001569 active site 1094497001570 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 1094497001571 substrate binding site [chemical binding]; other site 1094497001572 dimer interface [polypeptide binding]; other site 1094497001573 ATP binding site [chemical binding]; other site 1094497001574 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 1094497001575 thiamine phosphate binding site [chemical binding]; other site 1094497001576 active site 1094497001577 pyrophosphate binding site [ion binding]; other site 1094497001578 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 1094497001579 ThiS interaction site; other site 1094497001580 putative active site [active] 1094497001581 tetramer interface [polypeptide binding]; other site 1094497001582 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1094497001583 thiS-thiF/thiG interaction site; other site 1094497001584 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1094497001585 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1094497001586 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1094497001587 ThiC-associated domain; Region: ThiC-associated; pfam13667 1094497001588 ThiC family; Region: ThiC; pfam01964 1094497001589 Phage Tail Collar Domain; Region: Collar; pfam07484 1094497001590 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1094497001591 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1094497001592 Walker A/P-loop; other site 1094497001593 ATP binding site [chemical binding]; other site 1094497001594 Q-loop/lid; other site 1094497001595 ABC transporter signature motif; other site 1094497001596 Walker B; other site 1094497001597 D-loop; other site 1094497001598 H-loop/switch region; other site 1094497001599 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1094497001600 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 1094497001601 ABC-ATPase subunit interface; other site 1094497001602 dimer interface [polypeptide binding]; other site 1094497001603 putative PBP binding regions; other site 1094497001604 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 1094497001605 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1094497001606 putative hemin binding site; other site 1094497001607 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1094497001608 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1094497001609 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1094497001610 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1094497001611 N-terminal plug; other site 1094497001612 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1094497001613 ligand-binding site [chemical binding]; other site 1094497001614 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1094497001615 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1094497001616 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1094497001617 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 1094497001618 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1094497001619 catalytic residue [active] 1094497001620 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1094497001621 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1094497001622 dimer interface [polypeptide binding]; other site 1094497001623 active site 1094497001624 catalytic residue [active] 1094497001625 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 1094497001626 SmpB-tmRNA interface; other site 1094497001627 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 1094497001628 Fe-S cluster binding site [ion binding]; other site 1094497001629 DNA binding site [nucleotide binding] 1094497001630 active site 1094497001631 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1094497001632 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1094497001633 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1094497001634 Zn2+ binding site [ion binding]; other site 1094497001635 Mg2+ binding site [ion binding]; other site 1094497001636 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1094497001637 synthetase active site [active] 1094497001638 NTP binding site [chemical binding]; other site 1094497001639 metal binding site [ion binding]; metal-binding site 1094497001640 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 1094497001641 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1094497001642 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1094497001643 active site 1094497001644 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 1094497001645 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1094497001646 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1094497001647 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 1094497001648 Catalytic site [active] 1094497001649 ribonuclease III; Reviewed; Region: PRK12371 1094497001650 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 1094497001651 dimerization interface [polypeptide binding]; other site 1094497001652 active site 1094497001653 metal binding site [ion binding]; metal-binding site 1094497001654 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 1094497001655 dsRNA binding site [nucleotide binding]; other site 1094497001656 GTPase Era; Reviewed; Region: era; PRK00089 1094497001657 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1094497001658 G1 box; other site 1094497001659 GTP/Mg2+ binding site [chemical binding]; other site 1094497001660 Switch I region; other site 1094497001661 G2 box; other site 1094497001662 Switch II region; other site 1094497001663 G3 box; other site 1094497001664 G4 box; other site 1094497001665 G5 box; other site 1094497001666 KH domain; Region: KH_2; pfam07650 1094497001667 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1094497001668 Recombination protein O N terminal; Region: RecO_N; pfam11967 1094497001669 Recombination protein O C terminal; Region: RecO_C; pfam02565 1094497001670 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1094497001671 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1094497001672 active site 1094497001673 ATP-binding site [chemical binding]; other site 1094497001674 pantoate-binding site; other site 1094497001675 HXXH motif; other site 1094497001676 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 1094497001677 oligomerization interface [polypeptide binding]; other site 1094497001678 active site 1094497001679 metal binding site [ion binding]; metal-binding site 1094497001680 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1094497001681 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1094497001682 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1094497001683 dihydroorotase; Validated; Region: PRK09060 1094497001684 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 1094497001685 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 1094497001686 active site 1094497001687 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 1094497001688 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1094497001689 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094497001690 active site 1094497001691 HIGH motif; other site 1094497001692 nucleotide binding site [chemical binding]; other site 1094497001693 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1094497001694 KMSKS motif; other site 1094497001695 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1094497001696 Predicted membrane protein [Function unknown]; Region: COG2323 1094497001697 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1094497001698 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1094497001699 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094497001700 Walker A/P-loop; other site 1094497001701 ATP binding site [chemical binding]; other site 1094497001702 Q-loop/lid; other site 1094497001703 ABC transporter signature motif; other site 1094497001704 Walker B; other site 1094497001705 D-loop; other site 1094497001706 H-loop/switch region; other site 1094497001707 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1094497001708 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1094497001709 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1094497001710 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1094497001711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1094497001712 NAD(P) binding site [chemical binding]; other site 1094497001713 active site 1094497001714 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1094497001715 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 1094497001716 active site 1094497001717 tetramer interface [polypeptide binding]; other site 1094497001718 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1094497001719 active site 1094497001720 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1094497001721 Colicin V production protein; Region: Colicin_V; pfam02674 1094497001722 DNA repair protein RadA; Provisional; Region: PRK11823 1094497001723 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 1094497001724 Walker A motif/ATP binding site; other site 1094497001725 ATP binding site [chemical binding]; other site 1094497001726 Walker B motif; other site 1094497001727 replicative DNA helicase; Provisional; Region: PRK09165 1094497001728 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1094497001729 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 1094497001730 Walker A motif; other site 1094497001731 ATP binding site [chemical binding]; other site 1094497001732 Walker B motif; other site 1094497001733 DNA binding loops [nucleotide binding] 1094497001734 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1094497001735 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1094497001736 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1094497001737 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1094497001738 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1094497001739 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1094497001740 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 1094497001741 active site 1094497001742 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1094497001743 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1094497001744 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1094497001745 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1094497001746 NAD(P) binding site [chemical binding]; other site 1094497001747 homotetramer interface [polypeptide binding]; other site 1094497001748 homodimer interface [polypeptide binding]; other site 1094497001749 active site 1094497001750 acyl carrier protein; Provisional; Region: acpP; PRK00982 1094497001751 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1094497001752 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 1094497001753 dimer interface [polypeptide binding]; other site 1094497001754 active site 1094497001755 YceG-like family; Region: YceG; pfam02618 1094497001756 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1094497001757 dimerization interface [polypeptide binding]; other site 1094497001758 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1094497001759 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 1094497001760 catalytic site [active] 1094497001761 G-X2-G-X-G-K; other site 1094497001762 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1094497001763 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 1094497001764 S-adenosylmethionine binding site [chemical binding]; other site 1094497001765 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 1094497001766 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1094497001767 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1094497001768 SurA N-terminal domain; Region: SurA_N; pfam09312 1094497001769 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1094497001770 OstA-like protein; Region: OstA; cl00844 1094497001771 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1094497001772 Predicted permeases [General function prediction only]; Region: COG0795 1094497001773 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1094497001774 Predicted permeases [General function prediction only]; Region: COG0795 1094497001775 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1094497001776 DNA polymerase III subunit chi; Validated; Region: PRK05728 1094497001777 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 1094497001778 metabolite-proton symporter; Region: 2A0106; TIGR00883 1094497001779 putative substrate translocation pore; other site 1094497001780 hypothetical protein; Provisional; Region: PRK09945 1094497001781 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 1094497001782 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094497001783 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094497001784 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 1094497001785 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094497001786 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 1094497001787 active site 1094497001788 multimer interface [polypeptide binding]; other site 1094497001789 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1094497001790 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1094497001791 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1094497001792 GIY-YIG motif/motif A; other site 1094497001793 active site 1094497001794 catalytic site [active] 1094497001795 putative DNA binding site [nucleotide binding]; other site 1094497001796 metal binding site [ion binding]; metal-binding site 1094497001797 UvrB/uvrC motif; Region: UVR; pfam02151 1094497001798 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1094497001799 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1094497001800 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 1094497001801 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1094497001802 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1094497001803 seryl-tRNA synthetase; Provisional; Region: PRK05431 1094497001804 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1094497001805 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 1094497001806 dimer interface [polypeptide binding]; other site 1094497001807 active site 1094497001808 motif 1; other site 1094497001809 motif 2; other site 1094497001810 motif 3; other site 1094497001811 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1094497001812 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 1094497001813 S-adenosylmethionine binding site [chemical binding]; other site 1094497001814 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1094497001815 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1094497001816 Peptidase family M23; Region: Peptidase_M23; pfam01551 1094497001817 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 1094497001818 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 1094497001819 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 1094497001820 substrate binding pocket [chemical binding]; other site 1094497001821 aspartate-rich region 1; other site 1094497001822 periplasmic folding chaperone; Provisional; Region: PRK10788 1094497001823 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1094497001824 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 1094497001825 triosephosphate isomerase; Provisional; Region: PRK14565 1094497001826 substrate binding site [chemical binding]; other site 1094497001827 dimer interface [polypeptide binding]; other site 1094497001828 catalytic triad [active] 1094497001829 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 1094497001830 CTP synthetase; Validated; Region: pyrG; PRK05380 1094497001831 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 1094497001832 Catalytic site [active] 1094497001833 active site 1094497001834 UTP binding site [chemical binding]; other site 1094497001835 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1094497001836 active site 1094497001837 putative oxyanion hole; other site 1094497001838 catalytic triad [active] 1094497001839 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1094497001840 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1094497001841 enolase; Provisional; Region: eno; PRK00077 1094497001842 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 1094497001843 dimer interface [polypeptide binding]; other site 1094497001844 metal binding site [ion binding]; metal-binding site 1094497001845 substrate binding pocket [chemical binding]; other site 1094497001846 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 1094497001847 RNA binding site [nucleotide binding]; other site 1094497001848 TM2 domain; Region: TM2; pfam05154 1094497001849 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1094497001850 Septum formation initiator; Region: DivIC; pfam04977 1094497001851 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1094497001852 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 1094497001853 tetramer interface [polypeptide binding]; other site 1094497001854 TPP-binding site [chemical binding]; other site 1094497001855 heterodimer interface [polypeptide binding]; other site 1094497001856 phosphorylation loop region [posttranslational modification] 1094497001857 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 1094497001858 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 1094497001859 E3 interaction surface; other site 1094497001860 lipoyl attachment site [posttranslational modification]; other site 1094497001861 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 1094497001862 alpha subunit interface [polypeptide binding]; other site 1094497001863 TPP binding site [chemical binding]; other site 1094497001864 heterodimer interface [polypeptide binding]; other site 1094497001865 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1094497001866 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 1094497001867 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1094497001868 E3 interaction surface; other site 1094497001869 lipoyl attachment site [posttranslational modification]; other site 1094497001870 e3 binding domain; Region: E3_binding; pfam02817 1094497001871 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1094497001872 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1094497001873 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1094497001874 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1094497001875 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1094497001876 lipoyl synthase; Provisional; Region: PRK05481 1094497001877 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 1094497001878 FeS/SAM binding site; other site 1094497001879 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1094497001880 putative coenzyme Q binding site [chemical binding]; other site 1094497001881 Competence-damaged protein; Region: CinA; pfam02464 1094497001882 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1094497001883 substrate binding site; other site 1094497001884 dimer interface; other site 1094497001885 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 1094497001886 homotrimer interaction site [polypeptide binding]; other site 1094497001887 zinc binding site [ion binding]; other site 1094497001888 CDP-binding sites; other site 1094497001889 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 1094497001890 Rrf2 family protein; Region: rrf2_super; TIGR00738 1094497001891 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1094497001892 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 1094497001893 dimerization interface [polypeptide binding]; other site 1094497001894 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 1094497001895 dimer interface [polypeptide binding]; other site 1094497001896 phosphorylation site [posttranslational modification] 1094497001897 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 1094497001898 ATP binding site [chemical binding]; other site 1094497001899 Mg2+ binding site [ion binding]; other site 1094497001900 G-X-G motif; other site 1094497001901 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1094497001902 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 1094497001903 active site 1094497001904 phosphorylation site [posttranslational modification] 1094497001905 intermolecular recognition site; other site 1094497001906 dimerization interface [polypeptide binding]; other site 1094497001907 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 1094497001908 Walker A motif; other site 1094497001909 ATP binding site [chemical binding]; other site 1094497001910 Walker B motif; other site 1094497001911 arginine finger; other site 1094497001912 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1094497001913 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1094497001914 TrkA-N domain; Region: TrkA_N; pfam02254 1094497001915 TrkA-C domain; Region: TrkA_C; pfam02080 1094497001916 TrkA-N domain; Region: TrkA_N; pfam02254 1094497001917 TrkA-C domain; Region: TrkA_C; pfam02080 1094497001918 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1094497001919 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1094497001920 oligomer interface [polypeptide binding]; other site 1094497001921 active site residues [active] 1094497001922 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1094497001923 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1094497001924 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 1094497001925 Walker A motif; other site 1094497001926 ATP binding site [chemical binding]; other site 1094497001927 Walker B motif; other site 1094497001928 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1094497001929 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1094497001930 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1094497001931 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1094497001932 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 1094497001933 Walker A motif; other site 1094497001934 ATP binding site [chemical binding]; other site 1094497001935 Walker B motif; other site 1094497001936 arginine finger; other site 1094497001937 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1094497001938 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 1094497001939 IHF dimer interface [polypeptide binding]; other site 1094497001940 IHF - DNA interface [nucleotide binding]; other site 1094497001941 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1094497001942 Glucose inhibited division protein A; Region: GIDA; pfam01134 1094497001943 trigger factor; Provisional; Region: tig; PRK01490 1094497001944 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1094497001945 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1094497001946 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1094497001947 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1094497001948 GatB domain; Region: GatB_Yqey; smart00845 1094497001949 NADH dehydrogenase; Validated; Region: PRK08183 1094497001950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1094497001951 Rhomboid family; Region: Rhomboid; cl11446 1094497001952 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1094497001953 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1094497001954 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1094497001955 elongation factor Tu; Reviewed; Region: PRK00049 1094497001956 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1094497001957 G1 box; other site 1094497001958 GEF interaction site [polypeptide binding]; other site 1094497001959 GTP/Mg2+ binding site [chemical binding]; other site 1094497001960 Switch I region; other site 1094497001961 G2 box; other site 1094497001962 G3 box; other site 1094497001963 Switch II region; other site 1094497001964 G4 box; other site 1094497001965 G5 box; other site 1094497001966 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 1094497001967 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 1094497001968 Antibiotic Binding Site [chemical binding]; other site 1094497001969 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1094497001970 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1094497001971 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1094497001972 putative homodimer interface [polypeptide binding]; other site 1094497001973 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1094497001974 heterodimer interface [polypeptide binding]; other site 1094497001975 homodimer interface [polypeptide binding]; other site 1094497001976 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1094497001977 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 1094497001978 23S rRNA interface [nucleotide binding]; other site 1094497001979 L7/L12 interface [polypeptide binding]; other site 1094497001980 putative thiostrepton binding site; other site 1094497001981 L25 interface [polypeptide binding]; other site 1094497001982 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 1094497001983 mRNA/rRNA interface [nucleotide binding]; other site 1094497001984 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 1094497001985 23S rRNA interface [nucleotide binding]; other site 1094497001986 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1094497001987 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 1094497001988 L11 interface [polypeptide binding]; other site 1094497001989 putative EF-Tu interaction site [polypeptide binding]; other site 1094497001990 putative EF-G interaction site [polypeptide binding]; other site 1094497001991 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1094497001992 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 1094497001993 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1094497001994 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 1094497001995 RPB11 interaction site [polypeptide binding]; other site 1094497001996 RPB12 interaction site [polypeptide binding]; other site 1094497001997 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 1094497001998 RPB1 interaction site [polypeptide binding]; other site 1094497001999 RPB11 interaction site [polypeptide binding]; other site 1094497002000 RPB10 interaction site [polypeptide binding]; other site 1094497002001 RPB3 interaction site [polypeptide binding]; other site 1094497002002 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1094497002003 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1094497002004 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1094497002005 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1094497002006 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1094497002007 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1094497002008 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1094497002009 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1094497002010 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 1094497002011 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1094497002012 DNA binding site [nucleotide binding] 1094497002013 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1094497002014 ParB-like nuclease domain; Region: ParBc; pfam02195 1094497002015 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1094497002016 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094497002017 replicative DNA helicase; Provisional; Region: PRK09165 1094497002018 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1094497002019 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 1094497002020 Walker A motif; other site 1094497002021 ATP binding site [chemical binding]; other site 1094497002022 Walker B motif; other site 1094497002023 DNA binding loops [nucleotide binding] 1094497002024 SlyX; Region: SlyX; pfam04102 1094497002025 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1094497002026 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1094497002027 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1094497002028 Walker A/P-loop; other site 1094497002029 ATP binding site [chemical binding]; other site 1094497002030 Q-loop/lid; other site 1094497002031 ABC transporter signature motif; other site 1094497002032 Walker B; other site 1094497002033 D-loop; other site 1094497002034 H-loop/switch region; other site 1094497002035 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1094497002036 BioY family; Region: BioY; pfam02632 1094497002037 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1094497002038 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1094497002039 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1094497002040 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 1094497002041 Transporter associated domain; Region: CorC_HlyC; smart01091 1094497002042 Predicted integral membrane protein [Function unknown]; Region: COG0392 1094497002043 putative cation:proton antiport protein; Provisional; Region: PRK10669 1094497002044 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1094497002045 TrkA-N domain; Region: TrkA_N; pfam02254 1094497002046 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1094497002047 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1094497002048 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1094497002049 Protein export membrane protein; Region: SecD_SecF; pfam02355 1094497002050 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1094497002051 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1094497002052 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094497002053 threonine dehydratase; Validated; Region: PRK08639 1094497002054 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1094497002055 tetramer interface [polypeptide binding]; other site 1094497002056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094497002057 catalytic residue [active] 1094497002058 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1094497002059 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1094497002060 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1094497002061 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1094497002062 catalytic residues [active] 1094497002063 catalytic nucleophile [active] 1094497002064 Presynaptic Site I dimer interface [polypeptide binding]; other site 1094497002065 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1094497002066 Synaptic Flat tetramer interface [polypeptide binding]; other site 1094497002067 Synaptic Site I dimer interface [polypeptide binding]; other site 1094497002068 DNA binding site [nucleotide binding] 1094497002069 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 1094497002070 Walker A motif; other site 1094497002071 ATP binding site [chemical binding]; other site 1094497002072 Walker B motif; other site 1094497002073 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1094497002074 putative active site [active] 1094497002075 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1094497002076 ParA-like protein; Provisional; Region: PHA02518 1094497002077 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 1094497002078 P-loop; other site 1094497002079 Magnesium ion binding site [ion binding]; other site 1094497002080 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094497002081 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 1094497002082 non-specific DNA binding site [nucleotide binding]; other site 1094497002083 salt bridge; other site 1094497002084 sequence-specific DNA binding site [nucleotide binding]; other site 1094497002085 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 1094497002086 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 1094497002087 non-specific DNA binding site [nucleotide binding]; other site 1094497002088 salt bridge; other site 1094497002089 sequence-specific DNA binding site [nucleotide binding]; other site 1094497002090 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 1094497002091 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1094497002092 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1094497002093 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1094497002094 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 1094497002095 Walker A motif; other site 1094497002096 ATP binding site [chemical binding]; other site 1094497002097 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 1094497002098 TrbC/VIRB2 family; Region: TrbC; pfam04956 1094497002099 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 1094497002100 non-specific DNA binding site [nucleotide binding]; other site 1094497002101 salt bridge; other site 1094497002102 sequence-specific DNA binding site [nucleotide binding]; other site 1094497002103 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1094497002104 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1094497002105 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1094497002106 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1094497002107 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 1094497002108 non-specific DNA binding site [nucleotide binding]; other site 1094497002109 salt bridge; other site 1094497002110 sequence-specific DNA binding site [nucleotide binding]; other site 1094497002111 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1094497002112 ParB-like nuclease domain; Region: ParBc; pfam02195 1094497002113 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 1094497002114 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1094497002115 trimer interface [polypeptide binding]; other site 1094497002116 active site 1094497002117 substrate binding site [chemical binding]; other site 1094497002118 CoA binding site [chemical binding]; other site 1094497002119 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1094497002120 Part of AAA domain; Region: AAA_19; pfam13245 1094497002121 Family description; Region: UvrD_C_2; pfam13538 1094497002122 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 1094497002123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1094497002124 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 1094497002125 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1094497002126 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 1094497002127 putative substrate translocation pore; other site 1094497002128 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1094497002129 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 1094497002130 putative substrate translocation pore; other site 1094497002131 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1094497002132 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 1094497002133 dimerization interface [polypeptide binding]; other site 1094497002134 active site 1094497002135 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1094497002136 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 1094497002137 folate binding site [chemical binding]; other site 1094497002138 NADP+ binding site [chemical binding]; other site 1094497002139 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 1094497002140 HflK protein; Region: hflK; TIGR01933 1094497002141 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1094497002142 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 1094497002143 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1094497002144 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1094497002145 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 1094497002146 protein binding site [polypeptide binding]; other site 1094497002147 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 1094497002148 protein binding site [polypeptide binding]; other site 1094497002149 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1094497002150 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1094497002151 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1094497002152 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1094497002153 PYR/PP interface [polypeptide binding]; other site 1094497002154 dimer interface [polypeptide binding]; other site 1094497002155 TPP binding site [chemical binding]; other site 1094497002156 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1094497002157 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1094497002158 TPP-binding site [chemical binding]; other site 1094497002159 dimer interface [polypeptide binding]; other site 1094497002160 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1094497002161 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 1094497002162 putative substrate translocation pore; other site 1094497002163 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 1094497002164 AAA domain; Region: AAA_30; pfam13604 1094497002165 Family description; Region: UvrD_C_2; pfam13538 1094497002166 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 1094497002167 active site 1094497002168 hydrophilic channel; other site 1094497002169 dimerization interface [polypeptide binding]; other site 1094497002170 catalytic residues [active] 1094497002171 active site lid [active] 1094497002172 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1094497002173 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1094497002174 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1094497002175 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1094497002176 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 1094497002177 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094497002178 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094497002179 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1094497002180 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 1094497002181 active site 1094497002182 phosphorylation site [posttranslational modification] 1094497002183 intermolecular recognition site; other site 1094497002184 dimerization interface [polypeptide binding]; other site 1094497002185 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1094497002186 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 1094497002187 23S rRNA interface [nucleotide binding]; other site 1094497002188 L3 interface [polypeptide binding]; other site 1094497002189 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1094497002190 DHH family; Region: DHH; pfam01368 1094497002191 DHHA1 domain; Region: DHHA1; pfam02272 1094497002192 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1094497002193 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 1094497002194 ATP binding site [chemical binding]; other site 1094497002195 Mg2+ binding site [ion binding]; other site 1094497002196 G-X-G motif; other site 1094497002197 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 1094497002198 anchoring element; other site 1094497002199 dimer interface [polypeptide binding]; other site 1094497002200 ATP binding site [chemical binding]; other site 1094497002201 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 1094497002202 active site 1094497002203 metal binding site [ion binding]; metal-binding site 1094497002204 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1094497002205 lipoate-protein ligase B; Provisional; Region: PRK14341 1094497002206 Repair protein; Region: Repair_PSII; pfam04536 1094497002207 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1094497002208 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 1094497002209 non-specific DNA binding site [nucleotide binding]; other site 1094497002210 salt bridge; other site 1094497002211 sequence-specific DNA binding site [nucleotide binding]; other site 1094497002212 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 1094497002213 addiction module antidote protein, HigA family; Region: antidote_HigA; TIGR02607 1094497002214 AntA/AntB antirepressor; Region: AntA; cl01430 1094497002215 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1094497002216 YcfA-like protein; Region: YcfA; pfam07927 1094497002217 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1094497002218 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1094497002219 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 1094497002220 dimer interface [polypeptide binding]; other site 1094497002221 ssDNA binding site [nucleotide binding]; other site 1094497002222 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094497002223 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1094497002224 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 1094497002225 dimer interface [polypeptide binding]; other site 1094497002226 ssDNA binding site [nucleotide binding]; other site 1094497002227 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094497002228 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1094497002229 3-oxoacyl-[acyl-carrier-protein] synthase II; Region: PLN02787 1094497002230 AntA/AntB antirepressor; Region: AntA; cl01430 1094497002231 ERF superfamily; Region: ERF; pfam04404 1094497002232 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1094497002233 Helix-turn-helix domain; Region: HTH_17; pfam12728 1094497002234 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1094497002235 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1094497002236 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1094497002237 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1094497002238 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1094497002239 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 1094497002240 carboxyltransferase (CT) interaction site; other site 1094497002241 biotinylation site [posttranslational modification]; other site 1094497002242 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 1094497002243 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1094497002244 catalytic residues [active] 1094497002245 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1094497002246 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1094497002247 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1094497002248 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 1094497002249 FMN binding site [chemical binding]; other site 1094497002250 active site 1094497002251 catalytic residues [active] 1094497002252 substrate binding site [chemical binding]; other site 1094497002253 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1094497002254 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1094497002255 active site pocket [active] 1094497002256 putative dimer interface [polypeptide binding]; other site 1094497002257 putative cataytic base [active] 1094497002258 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1094497002259 ligand binding site [chemical binding]; other site 1094497002260 active site 1094497002261 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1094497002262 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1094497002263 Catalytic site; other site 1094497002264 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1094497002265 ribonuclease R; Region: RNase_R; TIGR02063 1094497002266 RNB domain; Region: RNB; pfam00773 1094497002267 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 1094497002268 RNA binding site [nucleotide binding]; other site 1094497002269 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1094497002270 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 1094497002271 active site 1094497002272 interdomain interaction site; other site 1094497002273 putative metal-binding site [ion binding]; other site 1094497002274 nucleotide binding site [chemical binding]; other site 1094497002275 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 1094497002276 domain I; other site 1094497002277 DNA binding groove [nucleotide binding] 1094497002278 phosphate binding site [ion binding]; other site 1094497002279 domain II; other site 1094497002280 domain III; other site 1094497002281 nucleotide binding site [chemical binding]; other site 1094497002282 catalytic site [active] 1094497002283 domain IV; other site 1094497002284 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1094497002285 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1094497002286 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1094497002287 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1094497002288 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1094497002289 DNA protecting protein DprA; Region: dprA; TIGR00732 1094497002290 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1094497002291 dihydroorotase; Validated; Region: PRK09059 1094497002292 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 1094497002293 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 1094497002294 active site 1094497002295 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1094497002296 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1094497002297 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1094497002298 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1094497002299 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1094497002300 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1094497002301 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1094497002302 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1094497002303 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1094497002304 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1094497002305 Walker A/P-loop; other site 1094497002306 ATP binding site [chemical binding]; other site 1094497002307 Q-loop/lid; other site 1094497002308 ABC transporter signature motif; other site 1094497002309 Walker B; other site 1094497002310 D-loop; other site 1094497002311 H-loop/switch region; other site 1094497002312 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1094497002313 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1094497002314 Walker A/P-loop; other site 1094497002315 ATP binding site [chemical binding]; other site 1094497002316 Q-loop/lid; other site 1094497002317 ABC transporter signature motif; other site 1094497002318 Walker B; other site 1094497002319 D-loop; other site 1094497002320 H-loop/switch region; other site 1094497002321 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 1094497002322 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1094497002323 TM-ABC transporter signature motif; other site 1094497002324 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1094497002325 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 1094497002326 TM-ABC transporter signature motif; other site 1094497002327 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1094497002328 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 1094497002329 putative ligand binding site [chemical binding]; other site 1094497002330 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 1094497002331 DNA-binding site [nucleotide binding]; DNA binding site 1094497002332 RNA-binding motif; other site 1094497002333 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 1094497002334 DNA-binding site [nucleotide binding]; DNA binding site 1094497002335 RNA-binding motif; other site 1094497002336 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1094497002337 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1094497002338 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1094497002339 hypothetical protein; Reviewed; Region: PRK00024 1094497002340 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1094497002341 MPN+ (JAMM) motif; other site 1094497002342 Zinc-binding site [ion binding]; other site 1094497002343 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 1094497002344 active site 1094497002345 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1094497002346 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1094497002347 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1094497002348 glutamate racemase; Provisional; Region: PRK00865 1094497002349 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1094497002350 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1094497002351 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 1094497002352 RNA binding surface [nucleotide binding]; other site 1094497002353 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1094497002354 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 1094497002355 Ligand Binding Site [chemical binding]; other site 1094497002356 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1094497002357 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1094497002358 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 1094497002359 FeS/SAM binding site; other site 1094497002360 LexA repressor; Validated; Region: PRK00215 1094497002361 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1094497002362 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 1094497002363 Catalytic site [active] 1094497002364 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094497002365 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 1094497002366 non-specific DNA binding site [nucleotide binding]; other site 1094497002367 salt bridge; other site 1094497002368 sequence-specific DNA binding site [nucleotide binding]; other site 1094497002369 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1094497002370 ParB-like nuclease domain; Region: ParBc; pfam02195 1094497002371 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 1094497002372 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 1094497002373 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1094497002374 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 1094497002375 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1094497002376 Homeodomain-like domain; Region: HTH_23; pfam13384 1094497002377 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1094497002378 catalytic residue [active] 1094497002379 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1094497002380 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 1094497002381 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1094497002382 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1094497002383 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1094497002384 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1094497002385 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 1094497002386 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1094497002387 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1094497002388 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1094497002389 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1094497002390 Baseplate J-like protein; Region: Baseplate_J; cl01294 1094497002391 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1094497002392 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 1094497002393 Phage tail repeat like; Region: PTR; pfam12789 1094497002394 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1094497002395 Phage tail tube protein FII; Region: Phage_tube; cl01390 1094497002396 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1094497002397 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1094497002398 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1094497002399 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094497002400 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1094497002401 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1094497002402 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1094497002403 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1094497002404 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1094497002405 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1094497002406 thymidylate kinase; Validated; Region: tmk; PRK00698 1094497002407 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 1094497002408 TMP-binding site; other site 1094497002409 ATP-binding site [chemical binding]; other site 1094497002410 DNA polymerase III subunit delta'; Validated; Region: PRK09112 1094497002411 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 1094497002412 Walker A motif; other site 1094497002413 ATP binding site [chemical binding]; other site 1094497002414 Walker B motif; other site 1094497002415 arginine finger; other site 1094497002416 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1094497002417 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1094497002418 active site 1094497002419 HIGH motif; other site 1094497002420 KMSKS motif; other site 1094497002421 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1094497002422 tRNA binding surface [nucleotide binding]; other site 1094497002423 anticodon binding site; other site 1094497002424 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1094497002425 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1094497002426 active site 1094497002427 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1094497002428 putative hydrolase; Provisional; Region: PRK02113 1094497002429 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1094497002430 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1094497002431 substrate binding site [chemical binding]; other site 1094497002432 oxyanion hole (OAH) forming residues; other site 1094497002433 trimer interface [polypeptide binding]; other site 1094497002434 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1094497002435 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1094497002436 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1094497002437 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 1094497002438 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1094497002439 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1094497002440 E-class dimer interface [polypeptide binding]; other site 1094497002441 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1094497002442 P-class dimer interface [polypeptide binding]; other site 1094497002443 active site 1094497002444 Cu2+ binding site [ion binding]; other site 1094497002445 Zn2+ binding site [ion binding]; other site 1094497002446 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1094497002447 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1094497002448 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 1094497002449 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1094497002450 catalytic residue [active] 1094497002451 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1094497002452 FeS assembly protein SufD; Region: sufD; TIGR01981 1094497002453 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1094497002454 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1094497002455 Walker A/P-loop; other site 1094497002456 ATP binding site [chemical binding]; other site 1094497002457 Q-loop/lid; other site 1094497002458 ABC transporter signature motif; other site 1094497002459 Walker B; other site 1094497002460 D-loop; other site 1094497002461 H-loop/switch region; other site 1094497002462 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1094497002463 putative ABC transporter; Region: ycf24; CHL00085 1094497002464 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1094497002465 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1094497002466 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1094497002467 catalytic residue [active] 1094497002468 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1094497002469 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1094497002470 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1094497002471 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1094497002472 active site 1094497002473 HIGH motif; other site 1094497002474 dimer interface [polypeptide binding]; other site 1094497002475 KMSKS motif; other site 1094497002476 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 1094497002477 RNA binding surface [nucleotide binding]; other site 1094497002478 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1094497002479 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 1094497002480 catalytic triad [active] 1094497002481 peptide chain release factor 2; Provisional; Region: PRK07342 1094497002482 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1094497002483 RF-1 domain; Region: RF-1; pfam00472 1094497002484 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1094497002485 Transglycosylase; Region: Transgly; pfam00912 1094497002486 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1094497002487 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1094497002488 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 1094497002489 active site 1094497002490 metal binding site [ion binding]; metal-binding site 1094497002491 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 1094497002492 RNA binding site [nucleotide binding]; other site 1094497002493 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 1094497002494 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1094497002495 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1094497002496 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1094497002497 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1094497002498 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 1094497002499 ATP binding site [chemical binding]; other site 1094497002500 putative Mg++ binding site [ion binding]; other site 1094497002501 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 1094497002502 nucleotide binding region [chemical binding]; other site 1094497002503 ATP-binding site [chemical binding]; other site 1094497002504 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1094497002505 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1094497002506 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1094497002507 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1094497002508 Walker A/P-loop; other site 1094497002509 ATP binding site [chemical binding]; other site 1094497002510 Q-loop/lid; other site 1094497002511 ABC transporter signature motif; other site 1094497002512 Walker B; other site 1094497002513 D-loop; other site 1094497002514 H-loop/switch region; other site 1094497002515 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1094497002516 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1094497002517 FtsX-like permease family; Region: FtsX; pfam02687 1094497002518 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1094497002519 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 1094497002520 dimer interface [polypeptide binding]; other site 1094497002521 motif 1; other site 1094497002522 active site 1094497002523 motif 2; other site 1094497002524 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 1094497002525 active site 1094497002526 motif 3; other site 1094497002527 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 1094497002528 anticodon binding site; other site 1094497002529 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1094497002530 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1094497002531 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1094497002532 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1094497002533 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1094497002534 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1094497002535 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00196 1094497002536 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1094497002537 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1094497002538 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1094497002539 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1094497002540 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1094497002541 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1094497002542 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 1094497002543 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1094497002544 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1094497002545 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1094497002546 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1094497002547 4Fe-4S binding domain; Region: Fer4; pfam00037 1094497002548 4Fe-4S binding domain; Region: Fer4; pfam00037 1094497002549 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1094497002550 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1094497002551 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 1094497002552 catalytic loop [active] 1094497002553 iron binding site [ion binding]; other site 1094497002554 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1094497002555 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 1094497002556 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1094497002557 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1094497002558 SLBB domain; Region: SLBB; pfam10531 1094497002559 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1094497002560 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1094497002561 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 1094497002562 putative dimer interface [polypeptide binding]; other site 1094497002563 [2Fe-2S] cluster binding site [ion binding]; other site 1094497002564 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1094497002565 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1094497002566 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1094497002567 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1094497002568 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1094497002569 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1094497002570 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 1094497002571 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1094497002572 GTP cyclohydrolase I; Provisional; Region: PLN03044 1094497002573 active site 1094497002574 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1094497002575 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1094497002576 trimerization site [polypeptide binding]; other site 1094497002577 active site 1094497002578 hypothetical protein; Validated; Region: PRK00041 1094497002579 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1094497002580 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 1094497002581 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1094497002582 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 1094497002583 active site 1094497002584 dimer interface [polypeptide binding]; other site 1094497002585 motif 1; other site 1094497002586 motif 2; other site 1094497002587 motif 3; other site 1094497002588 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 1094497002589 anticodon binding site; other site 1094497002590 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1094497002591 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1094497002592 DNA binding residues [nucleotide binding] 1094497002593 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 1094497002594 IHF dimer interface [polypeptide binding]; other site 1094497002595 IHF - DNA interface [nucleotide binding]; other site 1094497002596 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1094497002597 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 1094497002598 dimer interface [polypeptide binding]; other site 1094497002599 active site 1094497002600 CoA binding pocket [chemical binding]; other site 1094497002601 putative phosphate acyltransferase; Provisional; Region: PRK05331 1094497002602 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1094497002603 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1094497002604 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1094497002605 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1094497002606 putative RNA binding site [nucleotide binding]; other site 1094497002607 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 1094497002608 active site 1094497002609 homopentamer interface [polypeptide binding]; other site 1094497002610 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1094497002611 Lumazine binding domain; Region: Lum_binding; pfam00677 1094497002612 Lumazine binding domain; Region: Lum_binding; pfam00677 1094497002613 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1094497002614 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 1094497002615 catalytic motif [active] 1094497002616 Zn binding site [ion binding]; other site 1094497002617 RibD C-terminal domain; Region: RibD_C; cl17279 1094497002618 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1094497002619 ATP cone domain; Region: ATP-cone; pfam03477 1094497002620 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1094497002621 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 1094497002622 dimer interface [polypeptide binding]; other site 1094497002623 active site 1094497002624 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1094497002625 folate binding site [chemical binding]; other site 1094497002626 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1094497002627 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1094497002628 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1094497002629 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 1094497002630 AAA domain; Region: AAA_31; pfam13614 1094497002631 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1094497002632 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1094497002633 HflX GTPase family; Region: HflX; cd01878 1094497002634 G1 box; other site 1094497002635 GTP/Mg2+ binding site [chemical binding]; other site 1094497002636 Switch I region; other site 1094497002637 G2 box; other site 1094497002638 G3 box; other site 1094497002639 Switch II region; other site 1094497002640 G4 box; other site 1094497002641 G5 box; other site 1094497002642 bacterial Hfq-like; Region: Hfq; cd01716 1094497002643 hexamer interface [polypeptide binding]; other site 1094497002644 Sm1 motif; other site 1094497002645 RNA binding site [nucleotide binding]; other site 1094497002646 Sm2 motif; other site 1094497002647 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1094497002648 AAA domain; Region: AAA_13; pfam13166 1094497002649 Predicted membrane protein [Function unknown]; Region: COG1511 1094497002650 malic enzyme; Reviewed; Region: PRK12862 1094497002651 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1094497002652 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1094497002653 putative NAD(P) binding site [chemical binding]; other site 1094497002654 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1094497002655 acyl carrier protein; Provisional; Region: PRK06508 1094497002656 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 1094497002657 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 1094497002658 active site 1094497002659 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 1094497002660 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 1094497002661 dimer interface [polypeptide binding]; other site 1094497002662 active site 1094497002663 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1094497002664 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1094497002665 NAD(P) binding site [chemical binding]; other site 1094497002666 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1094497002667 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1094497002668 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1094497002669 putative acyl-acceptor binding pocket; other site 1094497002670 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1094497002671 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1094497002672 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094497002673 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1094497002674 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1094497002675 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1094497002676 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 1094497002677 putative dimer interface [polypeptide binding]; other site 1094497002678 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1094497002679 Response regulator receiver domain; Region: Response_reg; pfam00072 1094497002680 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 1094497002681 active site 1094497002682 phosphorylation site [posttranslational modification] 1094497002683 intermolecular recognition site; other site 1094497002684 dimerization interface [polypeptide binding]; other site 1094497002685 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 1094497002686 hypothetical protein; Validated; Region: PRK09087 1094497002687 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1094497002688 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1094497002689 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1094497002690 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1094497002691 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 1094497002692 dimerization interface [polypeptide binding]; other site 1094497002693 putative ATP binding site [chemical binding]; other site 1094497002694 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1094497002695 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1094497002696 active site 1094497002697 substrate binding site [chemical binding]; other site 1094497002698 cosubstrate binding site; other site 1094497002699 catalytic site [active] 1094497002700 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1094497002701 PAS fold; Region: PAS_4; pfam08448 1094497002702 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1094497002703 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 1094497002704 dimer interface [polypeptide binding]; other site 1094497002705 phosphorylation site [posttranslational modification] 1094497002706 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 1094497002707 ATP binding site [chemical binding]; other site 1094497002708 Mg2+ binding site [ion binding]; other site 1094497002709 G-X-G motif; other site 1094497002710 Response regulator receiver domain; Region: Response_reg; pfam00072 1094497002711 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 1094497002712 active site 1094497002713 phosphorylation site [posttranslational modification] 1094497002714 intermolecular recognition site; other site 1094497002715 dimerization interface [polypeptide binding]; other site 1094497002716 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1094497002717 Flavin Reductases; Region: FlaRed; cl00801 1094497002718 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1094497002719 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 1094497002720 substrate binding site [chemical binding]; other site 1094497002721 hexamer interface [polypeptide binding]; other site 1094497002722 metal binding site [ion binding]; metal-binding site 1094497002723 adenylosuccinate lyase; Provisional; Region: PRK07492 1094497002724 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1094497002725 tetramer interface [polypeptide binding]; other site 1094497002726 active site 1094497002727 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1094497002728 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1094497002729 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1094497002730 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1094497002731 ATP binding site [chemical binding]; other site 1094497002732 active site 1094497002733 substrate binding site [chemical binding]; other site 1094497002734 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1094497002735 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1094497002736 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1094497002737 putative active site [active] 1094497002738 catalytic triad [active] 1094497002739 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1094497002740 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 1094497002741 dimerization interface [polypeptide binding]; other site 1094497002742 ATP binding site [chemical binding]; other site 1094497002743 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 1094497002744 dimerization interface [polypeptide binding]; other site 1094497002745 ATP binding site [chemical binding]; other site 1094497002746 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1094497002747 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 1094497002748 putative GSH binding site [chemical binding]; other site 1094497002749 catalytic residues [active] 1094497002750 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1094497002751 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 1094497002752 putative substrate translocation pore; other site 1094497002753 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1094497002754 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 1094497002755 CAP-like domain; other site 1094497002756 active site 1094497002757 primary dimer interface [polypeptide binding]; other site 1094497002758 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094497002759 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1094497002760 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 1094497002761 dimer interface [polypeptide binding]; other site 1094497002762 anticodon binding site; other site 1094497002763 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 1094497002764 homodimer interface [polypeptide binding]; other site 1094497002765 motif 1; other site 1094497002766 active site 1094497002767 motif 2; other site 1094497002768 GAD domain; Region: GAD; pfam02938 1094497002769 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 1094497002770 active site 1094497002771 motif 3; other site 1094497002772 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1094497002773 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1094497002774 catalytic site [active] 1094497002775 putative active site [active] 1094497002776 putative substrate binding site [chemical binding]; other site 1094497002777 HRDC domain; Region: HRDC; pfam00570 1094497002778 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1094497002779 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1094497002780 polyphosphate kinase; Provisional; Region: PRK05443 1094497002781 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1094497002782 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1094497002783 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1094497002784 putative domain interface [polypeptide binding]; other site 1094497002785 putative active site [active] 1094497002786 catalytic site [active] 1094497002787 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1094497002788 putative domain interface [polypeptide binding]; other site 1094497002789 putative active site [active] 1094497002790 catalytic site [active] 1094497002791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1094497002792 salicylate hydroxylase; Provisional; Region: PRK06475 1094497002793 salicylate hydroxylase; Provisional; Region: PRK08163 1094497002794 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1094497002795 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1094497002796 putative active site [active] 1094497002797 putative PHP Thumb interface [polypeptide binding]; other site 1094497002798 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 1094497002799 generic binding surface II; other site 1094497002800 generic binding surface I; other site 1094497002801 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1094497002802 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 1094497002803 generic binding surface II; other site 1094497002804 ssDNA binding site; other site 1094497002805 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 1094497002806 ATP binding site [chemical binding]; other site 1094497002807 putative Mg++ binding site [ion binding]; other site 1094497002808 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 1094497002809 nucleotide binding region [chemical binding]; other site 1094497002810 ATP-binding site [chemical binding]; other site 1094497002811 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1094497002812 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 1094497002813 glutaminase active site [active] 1094497002814 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 1094497002815 dimer interface [polypeptide binding]; other site 1094497002816 active site 1094497002817 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 1094497002818 dimer interface [polypeptide binding]; other site 1094497002819 active site 1094497002820 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 1094497002821 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1094497002822 Substrate binding site; other site 1094497002823 Mg++ binding site; other site 1094497002824 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 1094497002825 active site 1094497002826 substrate binding site [chemical binding]; other site 1094497002827 CoA binding site [chemical binding]; other site 1094497002828 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1094497002829 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1094497002830 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1094497002831 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1094497002832 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1094497002833 Zn2+ binding site [ion binding]; other site 1094497002834 Mg2+ binding site [ion binding]; other site 1094497002835 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1094497002836 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1094497002837 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1094497002838 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1094497002839 active site 1094497002840 HIGH motif; other site 1094497002841 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094497002842 KMSK motif region; other site 1094497002843 tRNA binding surface [nucleotide binding]; other site 1094497002844 DALR anticodon binding domain; Region: DALR_1; smart00836 1094497002845 anticodon binding site; other site 1094497002846 Sporulation related domain; Region: SPOR; pfam05036 1094497002847 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1094497002848 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 1094497002849 homodimer interface [polypeptide binding]; other site 1094497002850 substrate-cofactor binding pocket; other site 1094497002851 catalytic residue [active] 1094497002852 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 1094497002853 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1094497002854 putative active site [active] 1094497002855 homoserine dehydrogenase; Provisional; Region: PRK06349 1094497002856 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1094497002857 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1094497002858 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1094497002859 isocitrate dehydrogenase; Validated; Region: PRK08299 1094497002860 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 1094497002861 putative substrate translocation pore; other site 1094497002862 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 1094497002863 MFS transport protein AraJ; Provisional; Region: PRK10091 1094497002864 putative substrate translocation pore; other site 1094497002865 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1094497002866 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1094497002867 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 1094497002868 active site 1094497002869 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1094497002870 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 1094497002871 active site 1094497002872 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1094497002873 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1094497002874 active site 1094497002875 (T/H)XGH motif; other site 1094497002876 DNA gyrase subunit A; Validated; Region: PRK05560 1094497002877 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 1094497002878 CAP-like domain; other site 1094497002879 active site 1094497002880 primary dimer interface [polypeptide binding]; other site 1094497002881 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094497002882 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094497002883 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094497002884 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094497002885 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094497002886 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1094497002887 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 1094497002888 dimer interface [polypeptide binding]; other site 1094497002889 ssDNA binding site [nucleotide binding]; other site 1094497002890 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094497002891 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1094497002892 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1094497002893 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1094497002894 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1094497002895 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1094497002896 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1094497002897 glutamine synthetase; Provisional; Region: glnA; PRK09469 1094497002898 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1094497002899 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1094497002900 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 1094497002901 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1094497002902 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1094497002903 active site 1094497002904 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1094497002905 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 1094497002906 motif 1; other site 1094497002907 active site 1094497002908 motif 2; other site 1094497002909 motif 3; other site 1094497002910 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1094497002911 recombinase A; Provisional; Region: recA; PRK09354 1094497002912 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 1094497002913 hexamer interface [polypeptide binding]; other site 1094497002914 Walker A motif; other site 1094497002915 ATP binding site [chemical binding]; other site 1094497002916 Walker B motif; other site 1094497002917 recombination factor protein RarA; Reviewed; Region: PRK13342 1094497002918 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 1094497002919 Walker A motif; other site 1094497002920 ATP binding site [chemical binding]; other site 1094497002921 Walker B motif; other site 1094497002922 arginine finger; other site 1094497002923 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1094497002924 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1094497002925 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1094497002926 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 1094497002927 protein binding site [polypeptide binding]; other site 1094497002928 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 1094497002929 protein binding site [polypeptide binding]; other site 1094497002930 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1094497002931 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1094497002932 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1094497002933 alphaNTD homodimer interface [polypeptide binding]; other site 1094497002934 alphaNTD - beta interaction site [polypeptide binding]; other site 1094497002935 alphaNTD - beta' interaction site [polypeptide binding]; other site 1094497002936 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1094497002937 30S ribosomal protein S11; Validated; Region: PRK05309 1094497002938 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1094497002939 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1094497002940 adenylate kinase; Reviewed; Region: adk; PRK00279 1094497002941 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 1094497002942 AMP-binding site [chemical binding]; other site 1094497002943 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1094497002944 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1094497002945 SecY translocase; Region: SecY; pfam00344 1094497002946 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1094497002947 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 1094497002948 23S rRNA binding site [nucleotide binding]; other site 1094497002949 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1094497002950 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1094497002951 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1094497002952 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 1094497002953 23S rRNA interface [nucleotide binding]; other site 1094497002954 5S rRNA interface [nucleotide binding]; other site 1094497002955 L27 interface [polypeptide binding]; other site 1094497002956 L5 interface [polypeptide binding]; other site 1094497002957 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1094497002958 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1094497002959 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1094497002960 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1094497002961 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1094497002962 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1094497002963 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1094497002964 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1094497002965 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1094497002966 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1094497002967 RNA binding site [nucleotide binding]; other site 1094497002968 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1094497002969 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1094497002970 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 1094497002971 23S rRNA interface [nucleotide binding]; other site 1094497002972 putative translocon interaction site; other site 1094497002973 signal recognition particle (SRP54) interaction site; other site 1094497002974 L23 interface [polypeptide binding]; other site 1094497002975 trigger factor interaction site; other site 1094497002976 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 1094497002977 23S rRNA interface [nucleotide binding]; other site 1094497002978 5S rRNA interface [nucleotide binding]; other site 1094497002979 putative antibiotic binding site [chemical binding]; other site 1094497002980 L25 interface [polypeptide binding]; other site 1094497002981 L27 interface [polypeptide binding]; other site 1094497002982 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1094497002983 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 1094497002984 G-X-X-G motif; other site 1094497002985 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1094497002986 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 1094497002987 putative translocon binding site; other site 1094497002988 protein-rRNA interface [nucleotide binding]; other site 1094497002989 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1094497002990 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1094497002991 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1094497002992 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1094497002993 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1094497002994 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1094497002995 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1094497002996 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1094497002997 elongation factor Tu; Reviewed; Region: PRK00049 1094497002998 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1094497002999 G1 box; other site 1094497003000 GEF interaction site [polypeptide binding]; other site 1094497003001 GTP/Mg2+ binding site [chemical binding]; other site 1094497003002 Switch I region; other site 1094497003003 G2 box; other site 1094497003004 G3 box; other site 1094497003005 Switch II region; other site 1094497003006 G4 box; other site 1094497003007 G5 box; other site 1094497003008 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 1094497003009 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 1094497003010 Antibiotic Binding Site [chemical binding]; other site 1094497003011 elongation factor G; Reviewed; Region: PRK00007 1094497003012 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1094497003013 G1 box; other site 1094497003014 putative GEF interaction site [polypeptide binding]; other site 1094497003015 GTP/Mg2+ binding site [chemical binding]; other site 1094497003016 Switch I region; other site 1094497003017 G2 box; other site 1094497003018 G3 box; other site 1094497003019 Switch II region; other site 1094497003020 G4 box; other site 1094497003021 G5 box; other site 1094497003022 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 1094497003023 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 1094497003024 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 1094497003025 30S ribosomal protein S7; Validated; Region: PRK05302 1094497003026 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 1094497003027 S17 interaction site [polypeptide binding]; other site 1094497003028 S8 interaction site; other site 1094497003029 16S rRNA interaction site [nucleotide binding]; other site 1094497003030 streptomycin interaction site [chemical binding]; other site 1094497003031 23S rRNA interaction site [nucleotide binding]; other site 1094497003032 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1094497003033 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 1094497003034 putative catalytic site [active] 1094497003035 putative phosphate binding site [ion binding]; other site 1094497003036 active site 1094497003037 metal binding site A [ion binding]; metal-binding site 1094497003038 DNA binding site [nucleotide binding] 1094497003039 putative AP binding site [nucleotide binding]; other site 1094497003040 putative metal binding site B [ion binding]; other site 1094497003041 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1094497003042 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 1094497003043 substrate binding pocket [chemical binding]; other site 1094497003044 membrane-bound complex binding site; other site 1094497003045 hinge residues; other site 1094497003046 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1094497003047 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 1094497003048 dimer interface [polypeptide binding]; other site 1094497003049 conserved gate region; other site 1094497003050 putative PBP binding loops; other site 1094497003051 ABC-ATPase subunit interface; other site 1094497003052 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 1094497003053 dimer interface [polypeptide binding]; other site 1094497003054 conserved gate region; other site 1094497003055 putative PBP binding loops; other site 1094497003056 ABC-ATPase subunit interface; other site 1094497003057 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1094497003058 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1094497003059 Walker A/P-loop; other site 1094497003060 ATP binding site [chemical binding]; other site 1094497003061 Q-loop/lid; other site 1094497003062 ABC transporter signature motif; other site 1094497003063 Walker B; other site 1094497003064 D-loop; other site 1094497003065 H-loop/switch region; other site 1094497003066 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1094497003067 Sel1-like repeats; Region: SEL1; smart00671 1094497003068 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1094497003069 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1094497003070 HIGH motif; other site 1094497003071 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1094497003072 active site 1094497003073 KMSKS motif; other site 1094497003074 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1094497003075 tRNA binding surface [nucleotide binding]; other site 1094497003076 anticodon binding site; other site 1094497003077 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1094497003078 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 1094497003079 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1094497003080 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1094497003081 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 1094497003082 S-adenosylmethionine binding site [chemical binding]; other site 1094497003083 RelB antitoxin; Region: RelB; cl01171 1094497003084 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1094497003085 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 1094497003086 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1094497003087 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1094497003088 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1094497003089 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1094497003090 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1094497003091 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1094497003092 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1094497003093 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1094497003094 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 1094497003095 Cu(I) binding site [ion binding]; other site 1094497003096 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1094497003097 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 1094497003098 S-adenosylmethionine binding site [chemical binding]; other site 1094497003099 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1094497003100 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1094497003101 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 1094497003102 active site 1094497003103 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1094497003104 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 1094497003105 nucleotide binding pocket [chemical binding]; other site 1094497003106 K-X-D-G motif; other site 1094497003107 catalytic site [active] 1094497003108 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1094497003109 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1094497003110 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 1094497003111 Dimer interface [polypeptide binding]; other site 1094497003112 BRCT sequence motif; other site 1094497003113 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1094497003114 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1094497003115 Walker A/P-loop; other site 1094497003116 ATP binding site [chemical binding]; other site 1094497003117 Q-loop/lid; other site 1094497003118 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1094497003119 Q-loop/lid; other site 1094497003120 ABC transporter signature motif; other site 1094497003121 Walker B; other site 1094497003122 D-loop; other site 1094497003123 H-loop/switch region; other site 1094497003124 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1094497003125 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1094497003126 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1094497003127 cell division protein FtsZ; Validated; Region: PRK09330 1094497003128 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 1094497003129 nucleotide binding site [chemical binding]; other site 1094497003130 SulA interaction site; other site 1094497003131 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1094497003132 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1094497003133 Cell division protein FtsA; Region: FtsA; smart00842 1094497003134 Cell division protein FtsA; Region: FtsA; pfam14450 1094497003135 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1094497003136 Cell division protein FtsQ; Region: FtsQ; pfam03799 1094497003137 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1094497003138 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1094497003139 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1094497003140 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1094497003141 FAD binding domain; Region: FAD_binding_4; pfam01565 1094497003142 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1094497003143 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1094497003144 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1094497003145 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1094497003146 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1094497003147 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1094497003148 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 1094497003149 active site 1094497003150 homodimer interface [polypeptide binding]; other site 1094497003151 cell division protein FtsW; Region: ftsW; TIGR02614 1094497003152 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 1094497003153 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1094497003154 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1094497003155 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1094497003156 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1094497003157 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 1094497003158 Mg++ binding site [ion binding]; other site 1094497003159 putative catalytic motif [active] 1094497003160 putative substrate binding site [chemical binding]; other site 1094497003161 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 1094497003162 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1094497003163 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1094497003164 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1094497003165 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1094497003166 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1094497003167 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1094497003168 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1094497003169 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1094497003170 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1094497003171 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1094497003172 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1094497003173 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1094497003174 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 1094497003175 S-adenosylmethionine binding site [chemical binding]; other site 1094497003176 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1094497003177 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 1094497003178 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1094497003179 catalytic residue [active] 1094497003180 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1094497003181 dimerization interface [polypeptide binding]; other site 1094497003182 putative DNA binding site [nucleotide binding]; other site 1094497003183 putative Zn2+ binding site [ion binding]; other site 1094497003184 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1094497003185 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1094497003186 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094497003187 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094497003188 ABC transporter; Region: ABC_tran_2; pfam12848 1094497003189 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094497003190 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 1094497003191 Isochorismatase family; Region: Isochorismatase; pfam00857 1094497003192 catalytic triad [active] 1094497003193 metal binding site [ion binding]; metal-binding site 1094497003194 conserved cis-peptide bond; other site 1094497003195 hypothetical protein; Provisional; Region: PRK14013 1094497003196 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 1094497003197 non-specific DNA binding site [nucleotide binding]; other site 1094497003198 salt bridge; other site 1094497003199 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003200 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1094497003201 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 1094497003202 non-specific DNA binding site [nucleotide binding]; other site 1094497003203 salt bridge; other site 1094497003204 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003205 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1094497003206 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1094497003207 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1094497003208 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1094497003209 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1094497003210 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1094497003211 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1094497003212 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1094497003213 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 1094497003214 DNA binding residues [nucleotide binding] 1094497003215 DNA primase; Validated; Region: dnaG; PRK05667 1094497003216 CHC2 zinc finger; Region: zf-CHC2; cl17510 1094497003217 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1094497003218 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 1094497003219 active site 1094497003220 metal binding site [ion binding]; metal-binding site 1094497003221 interdomain interaction site; other site 1094497003222 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1094497003223 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1094497003224 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1094497003225 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1094497003226 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1094497003227 PhoU domain; Region: PhoU; pfam01895 1094497003228 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 1094497003229 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 1094497003230 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1094497003231 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1094497003232 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1094497003233 catalytic site [active] 1094497003234 subunit interface [polypeptide binding]; other site 1094497003235 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 1094497003236 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1094497003237 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1094497003238 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1094497003239 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1094497003240 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1094497003241 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1094497003242 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 1094497003243 IMP binding site; other site 1094497003244 dimer interface [polypeptide binding]; other site 1094497003245 interdomain contacts; other site 1094497003246 partial ornithine binding site; other site 1094497003247 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 1094497003248 DNA-binding site [nucleotide binding]; DNA binding site 1094497003249 RNA-binding motif; other site 1094497003250 aspartate aminotransferase; Provisional; Region: PRK05764 1094497003251 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 1094497003252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094497003253 homodimer interface [polypeptide binding]; other site 1094497003254 catalytic residue [active] 1094497003255 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1094497003256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1094497003257 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 1094497003258 putative effector binding pocket; other site 1094497003259 dimerization interface [polypeptide binding]; other site 1094497003260 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1094497003261 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1094497003262 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1094497003263 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1094497003264 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 1094497003265 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1094497003266 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1094497003267 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1094497003268 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1094497003269 Bacterial SH3 domain; Region: SH3_3; pfam08239 1094497003270 excinuclease ABC subunit B; Provisional; Region: PRK05298 1094497003271 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 1094497003272 ATP binding site [chemical binding]; other site 1094497003273 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 1094497003274 nucleotide binding region [chemical binding]; other site 1094497003275 ATP-binding site [chemical binding]; other site 1094497003276 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1094497003277 UvrB/uvrC motif; Region: UVR; pfam02151 1094497003278 BA14K-like protein; Region: BA14K; pfam07886 1094497003279 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1094497003280 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1094497003281 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 1094497003282 active site 1094497003283 phosphorylation site [posttranslational modification] 1094497003284 intermolecular recognition site; other site 1094497003285 dimerization interface [polypeptide binding]; other site 1094497003286 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 1094497003287 DNA binding site [nucleotide binding] 1094497003288 HAMP domain; Region: HAMP; pfam00672 1094497003289 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 1094497003290 ATP binding site [chemical binding]; other site 1094497003291 Mg2+ binding site [ion binding]; other site 1094497003292 G-X-G motif; other site 1094497003293 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 1094497003294 Membrane fusogenic activity; Region: BMFP; pfam04380 1094497003295 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1094497003296 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1094497003297 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1094497003298 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1094497003299 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1094497003300 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1094497003301 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1094497003302 active site 1094497003303 Domain of unknown function DUF87; Region: DUF87; pfam01935 1094497003304 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1094497003305 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1094497003306 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1094497003307 5S rRNA interface [nucleotide binding]; other site 1094497003308 CTC domain interface [polypeptide binding]; other site 1094497003309 L16 interface [polypeptide binding]; other site 1094497003310 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 1094497003311 putative active site [active] 1094497003312 catalytic residue [active] 1094497003313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1094497003314 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1094497003315 GTP-binding protein YchF; Reviewed; Region: PRK09601 1094497003316 YchF GTPase; Region: YchF; cd01900 1094497003317 G1 box; other site 1094497003318 GTP/Mg2+ binding site [chemical binding]; other site 1094497003319 Switch I region; other site 1094497003320 G2 box; other site 1094497003321 Switch II region; other site 1094497003322 G3 box; other site 1094497003323 G4 box; other site 1094497003324 G5 box; other site 1094497003325 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 1094497003326 PRC-barrel domain; Region: PRC; pfam05239 1094497003327 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1094497003328 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1094497003329 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1094497003330 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1094497003331 [2Fe-2S] cluster binding site [ion binding]; other site 1094497003332 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1094497003333 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1094497003334 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1094497003335 active site 1094497003336 NTP binding site [chemical binding]; other site 1094497003337 metal binding triad [ion binding]; metal-binding site 1094497003338 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1094497003339 MoxR-like ATPases [General function prediction only]; Region: COG0714 1094497003340 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 1094497003341 Walker A motif; other site 1094497003342 ATP binding site [chemical binding]; other site 1094497003343 Walker B motif; other site 1094497003344 arginine finger; other site 1094497003345 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1094497003346 Protein of unknown function DUF58; Region: DUF58; pfam01882 1094497003347 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1094497003348 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1094497003349 Protein of unknown function (DUF1355); Region: DUF1355; pfam07090 1094497003350 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1094497003351 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 1094497003352 putative active site [active] 1094497003353 putative metal binding site [ion binding]; other site 1094497003354 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1094497003355 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1094497003356 Cation efflux family; Region: Cation_efflux; pfam01545 1094497003357 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1094497003358 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1094497003359 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1094497003360 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 1094497003361 Ligand Binding Site [chemical binding]; other site 1094497003362 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1094497003363 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1094497003364 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 1094497003365 active site 1094497003366 phosphorylation site [posttranslational modification] 1094497003367 intermolecular recognition site; other site 1094497003368 dimerization interface [polypeptide binding]; other site 1094497003369 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 1094497003370 DNA binding site [nucleotide binding] 1094497003371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 1094497003372 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 1094497003373 endonuclease subunit; Provisional; Region: 46; PHA02562 1094497003374 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1094497003375 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 1094497003376 inhibitor-cofactor binding pocket; inhibition site 1094497003377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094497003378 catalytic residue [active] 1094497003379 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1094497003380 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1094497003381 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1094497003382 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1094497003383 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094497003384 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1094497003385 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1094497003386 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1094497003387 Walker A/P-loop; other site 1094497003388 ATP binding site [chemical binding]; other site 1094497003389 Q-loop/lid; other site 1094497003390 ABC transporter signature motif; other site 1094497003391 Walker B; other site 1094497003392 D-loop; other site 1094497003393 H-loop/switch region; other site 1094497003394 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1094497003395 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1094497003396 Walker A/P-loop; other site 1094497003397 ATP binding site [chemical binding]; other site 1094497003398 Q-loop/lid; other site 1094497003399 ABC transporter signature motif; other site 1094497003400 Walker B; other site 1094497003401 D-loop; other site 1094497003402 H-loop/switch region; other site 1094497003403 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1094497003404 dipeptide transporter; Provisional; Region: PRK10913 1094497003405 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 1094497003406 dimer interface [polypeptide binding]; other site 1094497003407 conserved gate region; other site 1094497003408 ABC-ATPase subunit interface; other site 1094497003409 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1094497003410 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 1094497003411 dimer interface [polypeptide binding]; other site 1094497003412 conserved gate region; other site 1094497003413 putative PBP binding loops; other site 1094497003414 ABC-ATPase subunit interface; other site 1094497003415 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 1094497003416 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1094497003417 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 1094497003418 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1094497003419 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1094497003420 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1094497003421 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 1094497003422 generic binding surface II; other site 1094497003423 generic binding surface I; other site 1094497003424 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 1094497003425 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1094497003426 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 1094497003427 Predicted permeases [General function prediction only]; Region: COG0730 1094497003428 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 1094497003429 Ligand binding site [chemical binding]; other site 1094497003430 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1094497003431 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1094497003432 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 1094497003433 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1094497003434 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1094497003435 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1094497003436 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1094497003437 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1094497003438 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 1094497003439 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1094497003440 hypothetical protein; Reviewed; Region: PRK12497 1094497003441 Predicted methyltransferases [General function prediction only]; Region: COG0313 1094497003442 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1094497003443 putative SAM binding site [chemical binding]; other site 1094497003444 putative homodimer interface [polypeptide binding]; other site 1094497003445 Domain of unknown function DUF59; Region: DUF59; pfam01883 1094497003446 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1094497003447 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 1094497003448 Walker A motif; other site 1094497003449 ribonuclease P; Reviewed; Region: rnpA; PRK01313 1094497003450 membrane protein insertase; Provisional; Region: PRK01318 1094497003451 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1094497003452 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1094497003453 G1 box; other site 1094497003454 GTP/Mg2+ binding site [chemical binding]; other site 1094497003455 Switch I region; other site 1094497003456 G2 box; other site 1094497003457 G3 box; other site 1094497003458 Switch II region; other site 1094497003459 G4 box; other site 1094497003460 G5 box; other site 1094497003461 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1094497003462 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1094497003463 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1094497003464 N-terminal domain interface [polypeptide binding]; other site 1094497003465 dimer interface [polypeptide binding]; other site 1094497003466 substrate binding pocket (H-site) [chemical binding]; other site 1094497003467 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1094497003468 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1094497003469 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1094497003470 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 1094497003471 catalytic core [active] 1094497003472 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1094497003473 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1094497003474 ERF superfamily; Region: ERF; pfam04404 1094497003475 AntA/AntB antirepressor; Region: AntA; cl01430 1094497003476 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1094497003477 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1094497003478 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 1094497003479 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003480 Predicted transcriptional regulator [Transcription]; Region: COG2932 1094497003481 salt bridge; other site 1094497003482 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 1094497003483 Catalytic site [active] 1094497003484 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 1094497003485 non-specific DNA binding site [nucleotide binding]; other site 1094497003486 salt bridge; other site 1094497003487 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003488 active site 1094497003489 putative DNA-binding cleft [nucleotide binding]; other site 1094497003490 dimer interface [polypeptide binding]; other site 1094497003491 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; cl17280 1094497003492 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 1094497003493 3-oxoacyl-[acyl-carrier-protein] synthase II; Region: PLN02787 1094497003494 AntA/AntB antirepressor; Region: AntA; cl01430 1094497003495 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1094497003496 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1094497003497 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 1094497003498 dimer interface [polypeptide binding]; other site 1094497003499 ssDNA binding site [nucleotide binding]; other site 1094497003500 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094497003501 YcfA-like protein; Region: YcfA; pfam07927 1094497003502 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1094497003503 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1094497003504 putative active site [active] 1094497003505 AntA/AntB antirepressor; Region: AntA; pfam08346 1094497003506 AntA/AntB antirepressor; Region: AntA; cl01430 1094497003507 Fic family protein [Function unknown]; Region: COG3177 1094497003508 Fic/DOC family; Region: Fic; pfam02661 1094497003509 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1094497003510 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1094497003511 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 1094497003512 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1094497003513 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1094497003514 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1094497003515 tandem repeat interface [polypeptide binding]; other site 1094497003516 oligomer interface [polypeptide binding]; other site 1094497003517 active site residues [active] 1094497003518 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1094497003519 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1094497003520 AntA/AntB antirepressor; Region: AntA; cl01430 1094497003521 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1094497003522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 1094497003523 Protein of unknown function (DUF497); Region: DUF497; cl01108 1094497003524 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1094497003525 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1094497003526 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1094497003527 Baseplate J-like protein; Region: Baseplate_J; cl01294 1094497003528 Phage tail repeat like; Region: PTR; pfam12789 1094497003529 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1094497003530 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 1094497003531 non-specific DNA binding site [nucleotide binding]; other site 1094497003532 salt bridge; other site 1094497003533 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003534 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1094497003535 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1094497003536 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1094497003537 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1094497003538 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1094497003539 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1094497003540 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1094497003541 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1094497003542 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1094497003543 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1094497003544 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094497003545 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094497003546 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1094497003547 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1094497003548 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1094497003549 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1094497003550 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 1094497003551 catalytic residues [active] 1094497003552 AntA/AntB antirepressor; Region: AntA; pfam08346 1094497003553 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1094497003554 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 1094497003555 Mnt; Region: mnt; PHA01513 1094497003556 Arc-like DNA binding domain; Region: Arc; pfam03869 1094497003557 AntA/AntB antirepressor; Region: AntA; pfam08346 1094497003558 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1094497003559 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1094497003560 active site 1094497003561 Int/Topo IB signature motif; other site 1094497003562 Porin subfamily; Region: Porin_2; pfam02530 1094497003563 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 1094497003564 substrate binding site [chemical binding]; other site 1094497003565 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1094497003566 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cl02712 1094497003567 amidase catalytic site [active] 1094497003568 Zn binding residues [ion binding]; other site 1094497003569 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1094497003570 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1094497003571 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 1094497003572 putative substrate translocation pore; other site 1094497003573 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 1094497003574 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 1094497003575 metal binding site 2 [ion binding]; metal-binding site 1094497003576 putative DNA binding helix; other site 1094497003577 metal binding site 1 [ion binding]; metal-binding site 1094497003578 dimer interface [polypeptide binding]; other site 1094497003579 structural Zn2+ binding site [ion binding]; other site 1094497003580 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1094497003581 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1094497003582 HlyD family secretion protein; Region: HlyD_3; pfam13437 1094497003583 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1094497003584 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 1094497003585 putative substrate translocation pore; other site 1094497003586 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 1094497003587 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1094497003588 Coenzyme A binding pocket [chemical binding]; other site 1094497003589 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1094497003590 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1094497003591 dimer interface [polypeptide binding]; other site 1094497003592 active site 1094497003593 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1094497003594 catalytic residues [active] 1094497003595 substrate binding site [chemical binding]; other site 1094497003596 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1094497003597 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1094497003598 active site residue [active] 1094497003599 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1094497003600 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 1094497003601 FAD binding pocket [chemical binding]; other site 1094497003602 FAD binding motif [chemical binding]; other site 1094497003603 phosphate binding motif [ion binding]; other site 1094497003604 beta-alpha-beta structure motif; other site 1094497003605 NAD binding pocket [chemical binding]; other site 1094497003606 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1094497003607 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1094497003608 active site 1094497003609 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1094497003610 dimer interface [polypeptide binding]; other site 1094497003611 substrate binding site [chemical binding]; other site 1094497003612 catalytic residues [active] 1094497003613 glycine dehydrogenase; Provisional; Region: PRK05367 1094497003614 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1094497003615 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1094497003616 catalytic residue [active] 1094497003617 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 1094497003618 tetramer interface [polypeptide binding]; other site 1094497003619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094497003620 catalytic residue [active] 1094497003621 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 1094497003622 lipoyl attachment site [posttranslational modification]; other site 1094497003623 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1094497003624 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1094497003625 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1094497003626 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 1094497003627 ATP binding site [chemical binding]; other site 1094497003628 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1094497003629 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094497003630 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 1094497003631 non-specific DNA binding site [nucleotide binding]; other site 1094497003632 salt bridge; other site 1094497003633 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003634 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1094497003635 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1094497003636 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1094497003637 Bacterial SH3 domain; Region: SH3_3; pfam08239 1094497003638 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1094497003639 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1094497003640 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1094497003641 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1094497003642 Walker A/P-loop; other site 1094497003643 ATP binding site [chemical binding]; other site 1094497003644 Q-loop/lid; other site 1094497003645 ABC transporter signature motif; other site 1094497003646 Walker B; other site 1094497003647 D-loop; other site 1094497003648 H-loop/switch region; other site 1094497003649 NIL domain; Region: NIL; pfam09383 1094497003650 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 1094497003651 dimer interface [polypeptide binding]; other site 1094497003652 conserved gate region; other site 1094497003653 ABC-ATPase subunit interface; other site 1094497003654 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 1094497003655 putative active site [active] 1094497003656 putative catalytic site [active] 1094497003657 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1094497003658 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1094497003659 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1094497003660 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1094497003661 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1094497003662 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 1094497003663 P-loop, Walker A motif; other site 1094497003664 Base recognition motif; other site 1094497003665 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1094497003666 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1094497003667 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 1094497003668 structural tetrad; other site 1094497003669 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 1094497003670 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094497003671 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 1094497003672 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094497003673 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094497003674 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 1094497003675 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094497003676 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 1094497003677 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094497003678 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1094497003679 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 1094497003680 putative ligand binding residues [chemical binding]; other site 1094497003681 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1094497003682 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 1094497003683 ABC-ATPase subunit interface; other site 1094497003684 dimer interface [polypeptide binding]; other site 1094497003685 putative PBP binding regions; other site 1094497003686 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 1094497003687 ABC-ATPase subunit interface; other site 1094497003688 dimer interface [polypeptide binding]; other site 1094497003689 putative PBP binding regions; other site 1094497003690 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1094497003691 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1094497003692 Walker A/P-loop; other site 1094497003693 ATP binding site [chemical binding]; other site 1094497003694 Q-loop/lid; other site 1094497003695 ABC transporter signature motif; other site 1094497003696 Walker B; other site 1094497003697 D-loop; other site 1094497003698 H-loop/switch region; other site 1094497003699 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094497003700 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1094497003701 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1094497003702 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1094497003703 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 1094497003704 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094497003705 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 1094497003706 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094497003707 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094497003708 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094497003709 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 1094497003710 ParA-like protein; Provisional; Region: PHA02518 1094497003711 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 1094497003712 P-loop; other site 1094497003713 Magnesium ion binding site [ion binding]; other site 1094497003714 Putative phosphatase (DUF442); Region: DUF442; cl17385 1094497003715 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1094497003716 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1094497003717 active site 1094497003718 Riboflavin kinase; Region: Flavokinase; smart00904 1094497003719 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1094497003720 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 1094497003721 active site 1094497003722 motif I; other site 1094497003723 motif II; other site 1094497003724 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 1094497003725 hypothetical protein; Provisional; Region: PRK06518 1094497003726 Staphylococcal nuclease homologues; Region: SNc; smart00318 1094497003727 Catalytic site; other site 1094497003728 TrbC/VIRB2 family; Region: TrbC; pfam04956 1094497003729 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 1094497003730 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1094497003731 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1094497003732 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; cl01837 1094497003733 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1094497003734 VirB8 protein; Region: VirB8; cl01500 1094497003735 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1094497003736 VirB7 interaction site; other site 1094497003737 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1094497003738 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1094497003739 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 1094497003740 Walker A motif; other site 1094497003741 hexamer interface [polypeptide binding]; other site 1094497003742 ATP binding site [chemical binding]; other site 1094497003743 Walker B motif; other site 1094497003744 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1094497003745 FIC domain binding interface [polypeptide binding]; other site 1094497003746 Fic/DOC family; Region: Fic; cl00960 1094497003747 Fic/DOC family; Region: Fic; cl00960 1094497003748 Ti-type conjugative transfer system protein TraG; Region: TraG-Ti; TIGR02767 1094497003749 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 1094497003750 Walker A motif; other site 1094497003751 ATP binding site [chemical binding]; other site 1094497003752 Walker B motif; other site 1094497003753 Fic/DOC family; Region: Fic; cl00960 1094497003754 Fic/DOC family; Region: Fic; cl00960 1094497003755 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1094497003756 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1094497003757 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1094497003758 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1094497003759 active site 1094497003760 HIGH motif; other site 1094497003761 dimer interface [polypeptide binding]; other site 1094497003762 KMSKS motif; other site 1094497003763 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 1094497003764 Ligand Binding Site [chemical binding]; other site 1094497003765 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1094497003766 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1094497003767 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1094497003768 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 1094497003769 ring oligomerisation interface [polypeptide binding]; other site 1094497003770 ATP/Mg binding site [chemical binding]; other site 1094497003771 stacking interactions; other site 1094497003772 hinge regions; other site 1094497003773 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 1094497003774 oligomerisation interface [polypeptide binding]; other site 1094497003775 mobile loop; other site 1094497003776 roof hairpin; other site 1094497003777 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1094497003778 Class II fumarases; Region: Fumarase_classII; cd01362 1094497003779 active site 1094497003780 tetramer interface [polypeptide binding]; other site 1094497003781 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 1094497003782 active site 1094497003783 substrate binding site [chemical binding]; other site 1094497003784 metal binding site [ion binding]; metal-binding site 1094497003785 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 1094497003786 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1094497003787 catalytic triad [active] 1094497003788 dimer interface [polypeptide binding]; other site 1094497003789 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1094497003790 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 1094497003791 dimer interface [polypeptide binding]; other site 1094497003792 motif 1; other site 1094497003793 active site 1094497003794 motif 2; other site 1094497003795 motif 3; other site 1094497003796 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 1094497003797 anticodon binding site; other site 1094497003798 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 1094497003799 active site 1094497003800 dimer interface [polypeptide binding]; other site 1094497003801 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 1094497003802 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1094497003803 DNA methylase; Region: N6_N4_Mtase; pfam01555 1094497003804 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1094497003805 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 1094497003806 ATP binding site [chemical binding]; other site 1094497003807 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1094497003808 Peptidase family M23; Region: Peptidase_M23; pfam01551 1094497003809 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1094497003810 active site 1094497003811 metal binding site [ion binding]; metal-binding site 1094497003812 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1094497003813 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1094497003814 Histidine kinase; Region: HisKA_2; pfam07568 1094497003815 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1094497003816 ATP binding site [chemical binding]; other site 1094497003817 Mg2+ binding site [ion binding]; other site 1094497003818 G-X-G motif; other site 1094497003819 RNA polymerase sigma factor; Provisional; Region: PRK12547 1094497003820 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1094497003821 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 1094497003822 DNA binding residues [nucleotide binding] 1094497003823 two-component response regulator; Provisional; Region: PRK09191 1094497003824 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1094497003825 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 1094497003826 active site 1094497003827 phosphorylation site [posttranslational modification] 1094497003828 intermolecular recognition site; other site 1094497003829 dimerization interface [polypeptide binding]; other site 1094497003830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1094497003831 HWE histidine kinase; Region: HWE_HK; pfam07536 1094497003832 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1094497003833 G2 box; other site 1094497003834 Switch I region; other site 1094497003835 G3 box; other site 1094497003836 Switch II region; other site 1094497003837 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1094497003838 Haemolysin XhlA; Region: XhlA; pfam10779 1094497003839 Phage Tail Collar Domain; Region: Collar; pfam07484 1094497003840 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1094497003841 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 1094497003842 Phage terminase large subunit; Region: Terminase_3; cl12054 1094497003843 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094497003844 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 1094497003845 non-specific DNA binding site [nucleotide binding]; other site 1094497003846 salt bridge; other site 1094497003847 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003848 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1094497003849 Clp amino terminal domain; Region: Clp_N; pfam02861 1094497003850 Clp amino terminal domain; Region: Clp_N; pfam02861 1094497003851 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 1094497003852 Walker A motif; other site 1094497003853 ATP binding site [chemical binding]; other site 1094497003854 Walker B motif; other site 1094497003855 arginine finger; other site 1094497003856 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 1094497003857 Walker A motif; other site 1094497003858 ATP binding site [chemical binding]; other site 1094497003859 Walker B motif; other site 1094497003860 arginine finger; other site 1094497003861 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1094497003862 zinc-binding protein; Provisional; Region: PRK01343 1094497003863 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 1094497003864 active site 1094497003865 dimer interface [polypeptide binding]; other site 1094497003866 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 1094497003867 rRNA binding site [nucleotide binding]; other site 1094497003868 predicted 30S ribosome binding site; other site 1094497003869 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1094497003870 AIR carboxylase; Region: AIRC; cl00310 1094497003871 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1094497003872 ATP-grasp domain; Region: ATP-grasp; pfam02222 1094497003873 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1094497003874 TPR repeat; Region: TPR_11; pfam13414 1094497003875 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 1094497003876 TPR motif; other site 1094497003877 TPR repeat; Region: TPR_11; pfam13414 1094497003878 binding surface 1094497003879 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1094497003880 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1094497003881 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1094497003882 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1094497003883 putative active site [active] 1094497003884 metal binding site [ion binding]; metal-binding site 1094497003885 homodimer binding site [polypeptide binding]; other site 1094497003886 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094497003887 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 1094497003888 non-specific DNA binding site [nucleotide binding]; other site 1094497003889 salt bridge; other site 1094497003890 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003891 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1094497003892 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 1094497003893 hinge; other site 1094497003894 active site 1094497003895 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1094497003896 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 1094497003897 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 1094497003898 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 1094497003899 active site 1094497003900 metal binding site [ion binding]; metal-binding site 1094497003901 interdomain interaction site; other site 1094497003902 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 1094497003903 AAA domain; Region: AAA_25; pfam13481 1094497003904 Walker A motif; other site 1094497003905 ATP binding site [chemical binding]; other site 1094497003906 Walker B motif; other site 1094497003907 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 1094497003908 catalytic residues [active] 1094497003909 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094497003910 Predicted membrane protein [Function unknown]; Region: COG1238 1094497003911 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1094497003912 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1094497003913 CCC1-related protein family; Region: CCC1_like_1; cd02437 1094497003914 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1094497003915 trimer interface [polypeptide binding]; other site 1094497003916 active site 1094497003917 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1094497003918 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1094497003919 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1094497003920 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1094497003921 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 1094497003922 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 1094497003923 active site 1094497003924 substrate binding site [chemical binding]; other site 1094497003925 metal binding site [ion binding]; metal-binding site 1094497003926 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1094497003927 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 1094497003928 Walker A motif; other site 1094497003929 ATP binding site [chemical binding]; other site 1094497003930 Walker B motif; other site 1094497003931 arginine finger; other site 1094497003932 Peptidase family M41; Region: Peptidase_M41; pfam01434 1094497003933 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1094497003934 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 1094497003935 Ligand Binding Site [chemical binding]; other site 1094497003936 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1094497003937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1094497003938 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1094497003939 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1094497003940 ligand binding site [chemical binding]; other site 1094497003941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1094497003942 hypothetical protein; Validated; Region: PRK00110 1094497003943 translocation protein TolB; Provisional; Region: tolB; PRK05137 1094497003944 TolB amino-terminal domain; Region: TolB_N; pfam04052 1094497003945 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1094497003946 cell division protein ZipA; Provisional; Region: PRK03427 1094497003947 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1094497003948 TolR protein; Region: tolR; TIGR02801 1094497003949 TolQ protein; Region: tolQ; TIGR02796 1094497003950 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 1094497003951 active site 1094497003952 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1094497003953 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 1094497003954 Walker A motif; other site 1094497003955 ATP binding site [chemical binding]; other site 1094497003956 Walker B motif; other site 1094497003957 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1094497003958 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1094497003959 RuvA N terminal domain; Region: RuvA_N; pfam01330 1094497003960 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1094497003961 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 1094497003962 active site 1094497003963 putative DNA-binding cleft [nucleotide binding]; other site 1094497003964 dimer interface [polypeptide binding]; other site 1094497003965 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094497003966 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 1094497003967 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003968 salt bridge; other site 1094497003969 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 1094497003970 OpgC protein; Region: OpgC_C; pfam10129 1094497003971 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 1094497003972 active site 1094497003973 thiamine phosphate binding site [chemical binding]; other site 1094497003974 pyrophosphate binding site [ion binding]; other site 1094497003975 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094497003976 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 1094497003977 non-specific DNA binding site [nucleotide binding]; other site 1094497003978 salt bridge; other site 1094497003979 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003980 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1094497003981 Sel1-like repeats; Region: SEL1; smart00671 1094497003982 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094497003983 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 1094497003984 non-specific DNA binding site [nucleotide binding]; other site 1094497003985 salt bridge; other site 1094497003986 sequence-specific DNA binding site [nucleotide binding]; other site 1094497003987 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 1094497003988 elongation factor P; Validated; Region: PRK00529 1094497003989 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1094497003990 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 1094497003991 RNA binding site [nucleotide binding]; other site 1094497003992 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 1094497003993 RNA binding site [nucleotide binding]; other site 1094497003994 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1094497003995 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 1094497003996 active site 1094497003997 dimerization interface [polypeptide binding]; other site 1094497003998 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1094497003999 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1094497004000 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 1094497004001 Walker A/P-loop; other site 1094497004002 ATP binding site [chemical binding]; other site 1094497004003 Q-loop/lid; other site 1094497004004 ABC transporter signature motif; other site 1094497004005 Walker B; other site 1094497004006 D-loop; other site 1094497004007 H-loop/switch region; other site 1094497004008 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 1094497004009 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 1094497004010 active site 1094497004011 intersubunit interface [polypeptide binding]; other site 1094497004012 catalytic residue [active] 1094497004013 Phosphoglycerate kinase; Region: PGK; pfam00162 1094497004014 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 1094497004015 substrate binding site [chemical binding]; other site 1094497004016 hinge regions; other site 1094497004017 ADP binding site [chemical binding]; other site 1094497004018 catalytic site [active] 1094497004019 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1094497004020 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1094497004021 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1094497004022 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1094497004023 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 1094497004024 TPP-binding site [chemical binding]; other site 1094497004025 dimer interface [polypeptide binding]; other site 1094497004026 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 1094497004027 PYR/PP interface [polypeptide binding]; other site 1094497004028 dimer interface [polypeptide binding]; other site 1094497004029 TPP binding site [chemical binding]; other site 1094497004030 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1094497004031 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 1094497004032 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1094497004033 pyruvate kinase; Provisional; Region: PRK06247 1094497004034 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1094497004035 domain interfaces; other site 1094497004036 active site 1094497004037 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 1094497004038 hypothetical protein; Provisional; Region: PRK13694 1094497004039 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1094497004040 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094497004041 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094497004042 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1094497004043 Thiamine pyrophosphokinase; Region: TPK; cd07995 1094497004044 active site 1094497004045 dimerization interface [polypeptide binding]; other site 1094497004046 thiamine binding site [chemical binding]; other site 1094497004047 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 1094497004048 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1094497004049 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 1094497004050 DNA binding residues [nucleotide binding] 1094497004051 Ferredoxin [Energy production and conversion]; Region: COG1146 1094497004052 4Fe-4S binding domain; Region: Fer4; pfam00037 1094497004053 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1094497004054 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1094497004055 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1094497004056 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1094497004057 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1094497004058 substrate binding pocket [chemical binding]; other site 1094497004059 chain length determination region; other site 1094497004060 substrate-Mg2+ binding site; other site 1094497004061 catalytic residues [active] 1094497004062 aspartate-rich region 1; other site 1094497004063 active site lid residues [active] 1094497004064 aspartate-rich region 2; other site 1094497004065 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1094497004066 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1094497004067 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1094497004068 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1094497004069 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1094497004070 HlyD family secretion protein; Region: HlyD_3; pfam13437 1094497004071 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 1094497004072 putative substrate translocation pore; other site 1094497004073 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1094497004074 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1094497004075 gamma subunit interface [polypeptide binding]; other site 1094497004076 epsilon subunit interface [polypeptide binding]; other site 1094497004077 LBP interface [polypeptide binding]; other site 1094497004078 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1094497004079 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1094497004080 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 1094497004081 alpha subunit interaction interface [polypeptide binding]; other site 1094497004082 Walker A motif; other site 1094497004083 ATP binding site [chemical binding]; other site 1094497004084 Walker B motif; other site 1094497004085 inhibitor binding site; inhibition site 1094497004086 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1094497004087 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1094497004088 core domain interface [polypeptide binding]; other site 1094497004089 delta subunit interface [polypeptide binding]; other site 1094497004090 epsilon subunit interface [polypeptide binding]; other site 1094497004091 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1094497004092 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1094497004093 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 1094497004094 beta subunit interaction interface [polypeptide binding]; other site 1094497004095 Walker A motif; other site 1094497004096 ATP binding site [chemical binding]; other site 1094497004097 Walker B motif; other site 1094497004098 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1094497004099 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1094497004100 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1094497004101 primosome assembly protein PriA; Validated; Region: PRK05580 1094497004102 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 1094497004103 ATP binding site [chemical binding]; other site 1094497004104 putative Mg++ binding site [ion binding]; other site 1094497004105 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1094497004106 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1094497004107 active site 1094497004108 intersubunit interactions; other site 1094497004109 catalytic residue [active] 1094497004110 Lipopolysaccharide-assembly; Region: LptE; cl01125 1094497004111 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1094497004112 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1094497004113 HIGH motif; other site 1094497004114 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1094497004115 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094497004116 active site 1094497004117 KMSKS motif; other site 1094497004118 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1094497004119 tRNA binding surface [nucleotide binding]; other site 1094497004120 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1094497004121 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1094497004122 catalytic residue [active] 1094497004123 acetyl-CoA synthetase; Provisional; Region: PRK00174 1094497004124 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1094497004125 active site 1094497004126 CoA binding site [chemical binding]; other site 1094497004127 acyl-activating enzyme (AAE) consensus motif; other site 1094497004128 AMP binding site [chemical binding]; other site 1094497004129 acetate binding site [chemical binding]; other site 1094497004130 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1094497004131 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1094497004132 Walker A/P-loop; other site 1094497004133 ATP binding site [chemical binding]; other site 1094497004134 Q-loop/lid; other site 1094497004135 ABC transporter signature motif; other site 1094497004136 Walker B; other site 1094497004137 D-loop; other site 1094497004138 H-loop/switch region; other site 1094497004139 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1094497004140 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1094497004141 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 1094497004142 putative active site [active] 1094497004143 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1094497004144 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1094497004145 Walker A/P-loop; other site 1094497004146 ATP binding site [chemical binding]; other site 1094497004147 Q-loop/lid; other site 1094497004148 ABC transporter signature motif; other site 1094497004149 Walker B; other site 1094497004150 D-loop; other site 1094497004151 H-loop/switch region; other site 1094497004152 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1094497004153 FtsX-like permease family; Region: FtsX; pfam02687 1094497004154 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1094497004155 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1094497004156 HlyD family secretion protein; Region: HlyD_3; pfam13437 1094497004157 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1094497004158 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 1094497004159 putative catalytic site [active] 1094497004160 putative phosphate binding site [ion binding]; other site 1094497004161 active site 1094497004162 metal binding site A [ion binding]; metal-binding site 1094497004163 DNA binding site [nucleotide binding] 1094497004164 putative AP binding site [nucleotide binding]; other site 1094497004165 putative metal binding site B [ion binding]; other site 1094497004166 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1094497004167 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1094497004168 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1094497004169 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1094497004170 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1094497004171 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1094497004172 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 1094497004173 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1094497004174 H-NS histone family; Region: Histone_HNS; pfam00816 1094497004175 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1094497004176 TrbC/VIRB2 family; Region: TrbC; pfam04956 1094497004177 TrbC/VIRB2 family; Region: TrbC; pfam04956 1094497004178 TrbC/VIRB2 family; Region: TrbC; pfam04956 1094497004179 TrbC/VIRB2 family; Region: TrbC; pfam04956 1094497004180 Type IV secretory pathway, VirB3-like protein; Region: VirB3; pfam05101 1094497004181 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1094497004182 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1094497004183 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1094497004184 Type IV secretion system proteins; Region: T4SS; pfam07996 1094497004185 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1094497004186 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1094497004187 Type IV secretion system proteins; Region: T4SS; pfam07996 1094497004188 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1094497004189 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1094497004190 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1094497004191 Type IV secretion system proteins; Region: T4SS; pfam07996 1094497004192 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1094497004193 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1094497004194 VirB8 protein; Region: VirB8; pfam04335 1094497004195 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1094497004196 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1094497004197 VirB7 interaction site; other site 1094497004198 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1094497004199 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1094497004200 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 1094497004201 Walker A motif; other site 1094497004202 hexamer interface [polypeptide binding]; other site 1094497004203 ATP binding site [chemical binding]; other site 1094497004204 Walker B motif; other site 1094497004205 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1094497004206 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1094497004207 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1094497004208 L-aspartate oxidase; Provisional; Region: PRK06175 1094497004209 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1094497004210 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 1094497004211 putative SdhC subunit interface [polypeptide binding]; other site 1094497004212 putative proximal heme binding site [chemical binding]; other site 1094497004213 putative Iron-sulfur protein interface [polypeptide binding]; other site 1094497004214 putative proximal quinone binding site; other site 1094497004215 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 1094497004216 Iron-sulfur protein interface; other site 1094497004217 proximal quinone binding site [chemical binding]; other site 1094497004218 SdhD (CybS) interface [polypeptide binding]; other site 1094497004219 proximal heme binding site [chemical binding]; other site 1094497004220 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1094497004221 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1094497004222 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1094497004223 RimM N-terminal domain; Region: RimM; pfam01782 1094497004224 PRC-barrel domain; Region: PRC; pfam05239 1094497004225 SapC; Region: SapC; pfam07277 1094497004226 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1094497004227 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 1094497004228 active site 1094497004229 DNA binding site [nucleotide binding] 1094497004230 Int/Topo IB signature motif; other site 1094497004231 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1094497004232 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 1094497004233 HSP70 interaction site [polypeptide binding]; other site 1094497004234 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1094497004235 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1094497004236 AAA domain; Region: AAA_17; pfam13207 1094497004237 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1094497004238 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 1094497004239 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 1094497004240 metal ion-dependent adhesion site (MIDAS); other site 1094497004241 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 1094497004242 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1094497004243 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 1094497004244 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 1094497004245 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1094497004246 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 1094497004247 purine monophosphate binding site [chemical binding]; other site 1094497004248 dimer interface [polypeptide binding]; other site 1094497004249 putative catalytic residues [active] 1094497004250 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1094497004251 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 1094497004252 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1094497004253 putative RNA binding site [nucleotide binding]; other site 1094497004254 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1094497004255 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 1094497004256 S-adenosylmethionine binding site [chemical binding]; other site 1094497004257 heat shock protein HtpX; Provisional; Region: PRK01345 1094497004258 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1094497004259 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1094497004260 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1094497004261 chorismate mutase; Provisional; Region: PRK09239 1094497004262 signal recognition particle protein; Provisional; Region: PRK10867 1094497004263 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1094497004264 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 1094497004265 P loop; other site 1094497004266 GTP binding site [chemical binding]; other site 1094497004267 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1094497004268 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 1094497004269 active site clefts [active] 1094497004270 zinc binding site [ion binding]; other site 1094497004271 dimer interface [polypeptide binding]; other site 1094497004272 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1094497004273 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 1094497004274 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1094497004275 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1094497004276 catalytic triad [active] 1094497004277 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 1094497004278 HemY protein N-terminus; Region: HemY_N; pfam07219 1094497004279 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1094497004280 TPR motif; other site 1094497004281 binding surface 1094497004282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 1094497004283 UGMP family protein; Validated; Region: PRK09604 1094497004284 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1094497004285 EVE domain; Region: EVE; cl00728 1094497004286 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1094497004287 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 1094497004288 active site 1094497004289 phosphorylation site [posttranslational modification] 1094497004290 intermolecular recognition site; other site 1094497004291 dimerization interface [polypeptide binding]; other site 1094497004292 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 1094497004293 DNA binding site [nucleotide binding] 1094497004294 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1094497004295 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1094497004296 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 1094497004297 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1094497004298 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1094497004299 active site 1094497004300 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1094497004301 substrate binding site [chemical binding]; other site 1094497004302 catalytic residues [active] 1094497004303 dimer interface [polypeptide binding]; other site 1094497004304 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1094497004305 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 1094497004306 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1094497004307 catalytic residues [active] 1094497004308 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1094497004309 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1094497004310 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 1094497004311 prephenate dehydrogenase; Validated; Region: PRK08507 1094497004312 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1094497004313 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1094497004314 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1094497004315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094497004316 Walker A/P-loop; other site 1094497004317 ATP binding site [chemical binding]; other site 1094497004318 Q-loop/lid; other site 1094497004319 ABC transporter signature motif; other site 1094497004320 Walker B; other site 1094497004321 D-loop; other site 1094497004322 H-loop/switch region; other site 1094497004323 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1094497004324 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1094497004325 TM-ABC transporter signature motif; other site 1094497004326 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1094497004327 zinc binding site [ion binding]; other site 1094497004328 putative ligand binding site [chemical binding]; other site 1094497004329 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1094497004330 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094497004331 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1094497004332 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1094497004333 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1094497004334 ParB-like nuclease domain; Region: ParBc; pfam02195 1094497004335 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1094497004336 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 1094497004337 non-specific DNA binding site [nucleotide binding]; other site 1094497004338 salt bridge; other site 1094497004339 sequence-specific DNA binding site [nucleotide binding]; other site 1094497004340 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 1094497004341 dimer interface [polypeptide binding]; other site 1094497004342 substrate binding site [chemical binding]; other site 1094497004343 ATP binding site [chemical binding]; other site 1094497004344 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1094497004345 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1094497004346 putative acyl-acceptor binding pocket; other site 1094497004347 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1094497004348 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1094497004349 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1094497004350 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 1094497004351 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1094497004352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1094497004353 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1094497004354 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1094497004355 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1094497004356 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1094497004357 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 1094497004358 active site 1094497004359 DNA binding site [nucleotide binding] 1094497004360 Int/Topo IB signature motif; other site 1094497004361 shikimate kinase; Provisional; Region: PRK13946 1094497004362 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 1094497004363 ADP binding site [chemical binding]; other site 1094497004364 magnesium binding site [ion binding]; other site 1094497004365 putative shikimate binding site; other site 1094497004366 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1094497004367 active site 1094497004368 dimer interface [polypeptide binding]; other site 1094497004369 metal binding site [ion binding]; metal-binding site 1094497004370 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1094497004371 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1094497004372 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1094497004373 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1094497004374 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1094497004375 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1094497004376 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1094497004377 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1094497004378 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1094497004379 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1094497004380 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1094497004381 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 1094497004382 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1094497004383 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1094497004384 dimer interface [polypeptide binding]; other site 1094497004385 active site 1094497004386 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1094497004387 catalytic residues [active] 1094497004388 substrate binding site [chemical binding]; other site 1094497004389 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1094497004390 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1094497004391 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1094497004392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1094497004393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1094497004394 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1094497004395 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1094497004396 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 1094497004397 E3 interaction surface; other site 1094497004398 lipoyl attachment site [posttranslational modification]; other site 1094497004399 e3 binding domain; Region: E3_binding; pfam02817 1094497004400 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1094497004401 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1094497004402 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 1094497004403 TPP-binding site [chemical binding]; other site 1094497004404 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1094497004405 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1094497004406 CoA binding domain; Region: CoA_binding; smart00881 1094497004407 CoA-ligase; Region: Ligase_CoA; pfam00549 1094497004408 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1094497004409 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1094497004410 CoA-ligase; Region: Ligase_CoA; pfam00549 1094497004411 malate dehydrogenase; Reviewed; Region: PRK06223 1094497004412 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1094497004413 NAD(P) binding site [chemical binding]; other site 1094497004414 dimer interface [polypeptide binding]; other site 1094497004415 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094497004416 substrate binding site [chemical binding]; other site 1094497004417 Predicted ATPase [General function prediction only]; Region: COG1485 1094497004418 Protease inhibitor Inh; Region: Inh; pfam02974 1094497004419 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1094497004420 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1094497004421 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1094497004422 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1094497004423 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 1094497004424 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 1094497004425 FeS/SAM binding site; other site 1094497004426 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1094497004427 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1094497004428 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 1094497004429 P loop; other site 1094497004430 GTP binding site [chemical binding]; other site 1094497004431 intracellular septation protein A; Reviewed; Region: PRK00259 1094497004432 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1094497004433 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1094497004434 ParB-like nuclease domain; Region: ParBc; pfam02195 1094497004435 KorB domain; Region: KorB; pfam08535 1094497004436 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1094497004437 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 1094497004438 P-loop; other site 1094497004439 Magnesium ion binding site [ion binding]; other site 1094497004440 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 1094497004441 Magnesium ion binding site [ion binding]; other site 1094497004442 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1094497004443 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1094497004444 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1094497004445 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1094497004446 L-aspartate oxidase; Provisional; Region: PRK06175 1094497004447 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1094497004448 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1094497004449 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1094497004450 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1094497004451 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1094497004452 G1 box; other site 1094497004453 GTP/Mg2+ binding site [chemical binding]; other site 1094497004454 Switch I region; other site 1094497004455 G2 box; other site 1094497004456 Switch II region; other site 1094497004457 G3 box; other site 1094497004458 G4 box; other site 1094497004459 G5 box; other site 1094497004460 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1094497004461 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1094497004462 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1094497004463 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 1094497004464 RNA binding site [nucleotide binding]; other site 1094497004465 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 1094497004466 multimer interface [polypeptide binding]; other site 1094497004467 Walker A motif; other site 1094497004468 ATP binding site [chemical binding]; other site 1094497004469 Walker B motif; other site