-- dump date 20140619_001009 -- class Genbank::misc_feature -- table misc_feature_note -- id note 283166000001 PEP synthetase regulatory protein; Provisional; Region: PRK05339 283166000002 Maf-like protein; Region: Maf; pfam02545 283166000003 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 283166000004 active site 283166000005 dimer interface [polypeptide binding]; other site 283166000006 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 283166000007 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 283166000008 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 283166000009 shikimate binding site; other site 283166000010 NAD(P) binding site [chemical binding]; other site 283166000011 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 283166000012 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 283166000013 CoA-binding site [chemical binding]; other site 283166000014 ATP-binding [chemical binding]; other site 283166000015 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 283166000016 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 283166000017 active site 283166000018 catalytic site [active] 283166000019 substrate binding site [chemical binding]; other site 283166000020 DNA polymerase I; Provisional; Region: PRK05755 283166000021 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 283166000022 active site 283166000023 metal binding site 1 [ion binding]; metal-binding site 283166000024 putative 5' ssDNA interaction site; other site 283166000025 metal binding site 3; metal-binding site 283166000026 metal binding site 2 [ion binding]; metal-binding site 283166000027 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 283166000028 putative DNA binding site [nucleotide binding]; other site 283166000029 putative metal binding site [ion binding]; other site 283166000030 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 283166000031 active site 283166000032 catalytic site [active] 283166000033 substrate binding site [chemical binding]; other site 283166000034 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 283166000035 active site 283166000036 DNA binding site [nucleotide binding] 283166000037 catalytic site [active] 283166000038 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 283166000039 putative catalytic site [active] 283166000040 putative metal binding site [ion binding]; other site 283166000041 putative phosphate binding site [ion binding]; other site 283166000042 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 283166000043 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 283166000044 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 283166000045 Major Facilitator Superfamily; Region: MFS_1; pfam07690 283166000046 putative substrate translocation pore; other site 283166000047 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 283166000048 putative acyl-acceptor binding pocket; other site 283166000049 lipoprotein signal peptidase; Provisional; Region: PRK14795 283166000050 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 283166000051 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 283166000052 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 283166000053 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 283166000054 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 283166000055 S-adenosylmethionine binding site [chemical binding]; other site 283166000056 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 283166000057 IHF dimer interface [polypeptide binding]; other site 283166000058 IHF - DNA interface [nucleotide binding]; other site 283166000059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 283166000060 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 283166000061 OstA-like protein; Region: OstA; pfam03968 283166000062 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 283166000063 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 283166000064 Walker A/P-loop; other site 283166000065 ATP binding site [chemical binding]; other site 283166000066 Q-loop/lid; other site 283166000067 ABC transporter signature motif; other site 283166000068 Walker B; other site 283166000069 D-loop; other site 283166000070 H-loop/switch region; other site 283166000071 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 283166000072 active site 283166000073 phosphorylation site [posttranslational modification] 283166000074 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 283166000075 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 283166000076 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 283166000077 FeS/SAM binding site; other site 283166000078 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 283166000079 Identified by comparison to Agrobacterium tumefaciens;argininosuccinate synthase 283166000080 Prophage integrase;Identified by comparison to Bartonella henselae 283166000081 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 283166000082 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 283166000083 active site 283166000084 nucleotide binding site [chemical binding]; other site 283166000085 HIGH motif; other site 283166000086 KMSKS motif; other site 283166000087 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 283166000088 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 283166000089 G1 box; other site 283166000090 putative GEF interaction site [polypeptide binding]; other site 283166000091 GTP/Mg2+ binding site [chemical binding]; other site 283166000092 Switch I region; other site 283166000093 G2 box; other site 283166000094 G3 box; other site 283166000095 Switch II region; other site 283166000096 G4 box; other site 283166000097 G5 box; other site 283166000098 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 283166000099 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 283166000100 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 283166000101 catalytic residues [active] 283166000102 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 283166000103 Part of AAA domain; Region: AAA_19; pfam13245 283166000104 Family description; Region: UvrD_C_2; pfam13538 283166000105 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 283166000106 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 283166000107 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 283166000108 Identified by comparison to Bartonella quintana;chlorosome protein 283166000109 PAS domain; Region: PAS; smart00091 283166000110 PAS domain S-box; Region: sensory_box; TIGR00229 283166000111 PAS fold; Region: PAS_7; pfam12860 283166000112 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 283166000113 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 283166000114 dimer interface [polypeptide binding]; other site 283166000115 phosphorylation site [posttranslational modification] 283166000116 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 283166000117 ATP binding site [chemical binding]; other site 283166000118 Mg2+ binding site [ion binding]; other site 283166000119 G-X-G motif; other site 283166000120 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 283166000121 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 283166000122 homotetramer interface [polypeptide binding]; other site 283166000123 ligand binding site [chemical binding]; other site 283166000124 catalytic site [active] 283166000125 NAD binding site [chemical binding]; other site 283166000126 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 283166000127 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 283166000128 putative NAD(P) binding site [chemical binding]; other site 283166000129 active site 283166000130 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 283166000131 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 283166000132 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 283166000133 Identified by comparison to Bartonella henselae;Prophage integrase 283166000134 CysZ-like protein; Reviewed; Region: PRK12768 283166000135 Identified by comparison to Bartonella henselae;Prophage integrase 283166000136 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 283166000137 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 283166000138 Flavoprotein; Region: Flavoprotein; pfam02441 283166000139 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 283166000140 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 283166000141 ABC1 family; Region: ABC1; cl17513 283166000142 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 283166000143 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 283166000144 S-adenosylmethionine binding site [chemical binding]; other site 283166000145 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 283166000146 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 283166000147 Mg2+ binding site [ion binding]; other site 283166000148 G-X-G motif; other site 283166000149 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 283166000150 anchoring element; other site 283166000151 dimer interface [polypeptide binding]; other site 283166000152 ATP binding site [chemical binding]; other site 283166000153 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 283166000154 active site 283166000155 putative metal-binding site [ion binding]; other site 283166000156 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 283166000157 Identified by comparison to Bartonella henselae;Prophage integrase 283166000158 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 283166000159 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 283166000160 substrate binding pocket [chemical binding]; other site 283166000161 membrane-bound complex binding site; other site 283166000162 hinge residues; other site 283166000163 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 283166000164 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 283166000165 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 283166000166 Walker A motif; other site 283166000167 ATP binding site [chemical binding]; other site 283166000168 Walker B motif; other site 283166000169 arginine finger; other site 283166000170 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 283166000171 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 283166000172 Surface antigen; Region: Bac_surface_Ag; pfam01103 283166000173 Family of unknown function (DUF490); Region: DUF490; pfam04357 283166000174 Family of unknown function (DUF490); Region: DUF490; pfam04357 283166000175 Family of unknown function (DUF490); Region: DUF490; pfam04357 283166000176 Identified by comparison to Bartonella henselae;Prophage integrase 283166000177 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 283166000178 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 283166000179 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 283166000180 Walker A/P-loop; other site 283166000181 ATP binding site [chemical binding]; other site 283166000182 Q-loop/lid; other site 283166000183 ABC transporter signature motif; other site 283166000184 Walker B; other site 283166000185 D-loop; other site 283166000186 H-loop/switch region; other site 283166000187 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 283166000188 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 283166000189 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 283166000190 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 283166000191 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 283166000192 catalytic site [active] 283166000193 Protein of unknown function DUF45; Region: DUF45; pfam01863 283166000194 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 283166000195 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 283166000196 metal binding site [ion binding]; metal-binding site 283166000197 dimer interface [polypeptide binding]; other site 283166000198 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 283166000199 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 283166000200 FeS/SAM binding site; other site 283166000201 HemN C-terminal domain; Region: HemN_C; pfam06969 283166000202 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 283166000203 active site 283166000204 dimerization interface [polypeptide binding]; other site 283166000205 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 283166000206 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 283166000207 heat shock protein GrpE; Provisional; Region: PRK14141 283166000208 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 283166000209 dimer interface [polypeptide binding]; other site 283166000210 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 283166000211 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 283166000212 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 283166000213 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 283166000214 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 283166000215 regulatory protein interface [polypeptide binding]; other site 283166000216 active site 283166000217 regulatory phosphorylation site [posttranslational modification]; other site 283166000218 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 283166000219 active pocket/dimerization site; other site 283166000220 active site 283166000221 phosphorylation site [posttranslational modification] 283166000222 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 283166000223 homohexamer subunit interaction site [polypeptide binding]; other site 283166000224 Hpr binding site; other site 283166000225 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 283166000226 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 283166000227 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283166000228 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 283166000229 dimerization interface [polypeptide binding]; other site 283166000230 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 283166000231 dimer interface [polypeptide binding]; other site 283166000232 phosphorylation site [posttranslational modification] 283166000233 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 283166000234 ATP binding site [chemical binding]; other site 283166000235 Mg2+ binding site [ion binding]; other site 283166000236 G-X-G motif; other site 283166000237 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 283166000238 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 283166000239 active site 283166000240 phosphorylation site [posttranslational modification] 283166000241 intermolecular recognition site; other site 283166000242 dimerization interface [polypeptide binding]; other site 283166000243 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 283166000244 DNA binding site [nucleotide binding] 283166000245 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 283166000246 BON domain; Region: BON; pfam04972 283166000247 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 283166000248 Protein of unknown function (DUF461); Region: DUF461; pfam04314 283166000249 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 283166000250 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 283166000251 nucleotide binding site [chemical binding]; other site 283166000252 NEF interaction site [polypeptide binding]; other site 283166000253 SBD interface [polypeptide binding]; other site 283166000254 chaperone protein DnaJ; Provisional; Region: PRK10767 283166000255 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 283166000256 HSP70 interaction site [polypeptide binding]; other site 283166000257 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 283166000258 substrate binding site [polypeptide binding]; other site 283166000259 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 283166000260 Zn binding sites [ion binding]; other site 283166000261 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 283166000262 dimer interface [polypeptide binding]; other site 283166000263 Identified by comparison to Bartonella henselae;Prophage integrase 283166000264 Identified by comparison to Bartonella henselae;Prophage integrase 283166000265 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 283166000266 homohexameric interface [polypeptide binding]; other site 283166000267 feedback inhibition sensing region; other site 283166000268 nucleotide binding site [chemical binding]; other site 283166000269 N-acetyl-L-glutamate binding site [chemical binding]; other site 283166000270 EamA-like transporter family; Region: EamA; pfam00892 283166000271 GTP-binding protein LepA; Provisional; Region: PRK05433 283166000272 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 283166000273 G1 box; other site 283166000274 putative GEF interaction site [polypeptide binding]; other site 283166000275 GTP/Mg2+ binding site [chemical binding]; other site 283166000276 Switch I region; other site 283166000277 G2 box; other site 283166000278 G3 box; other site 283166000279 Switch II region; other site 283166000280 G4 box; other site 283166000281 G5 box; other site 283166000282 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 283166000283 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 283166000284 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 283166000285 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 283166000286 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 283166000287 trimer interface [polypeptide binding]; other site 283166000288 active site 283166000289 substrate binding site [chemical binding]; other site 283166000290 CoA binding site [chemical binding]; other site 283166000291 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 283166000292 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 283166000293 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 283166000294 dimerization interface 3.5A [polypeptide binding]; other site 283166000295 active site 283166000296 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 283166000297 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 283166000298 putative active site [active] 283166000299 substrate binding site [chemical binding]; other site 283166000300 putative cosubstrate binding site; other site 283166000301 catalytic site [active] 283166000302 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 283166000303 substrate binding site [chemical binding]; other site 283166000304 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 283166000305 active site 283166000306 catalytic residues [active] 283166000307 metal binding site [ion binding]; metal-binding site 283166000308 RmuC family; Region: RmuC; pfam02646 283166000309 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 283166000310 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283166000311 catalytic residue [active] 283166000312 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 283166000313 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 283166000314 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 283166000315 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 283166000316 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 283166000317 minor groove reading motif; other site 283166000318 helix-hairpin-helix signature motif; other site 283166000319 substrate binding pocket [chemical binding]; other site 283166000320 active site 283166000321 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 283166000322 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 283166000323 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 283166000324 23S rRNA binding site [nucleotide binding]; other site 283166000325 L21 binding site [polypeptide binding]; other site 283166000326 L13 binding site [polypeptide binding]; other site 283166000327 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 283166000328 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 283166000329 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 283166000330 dimer interface [polypeptide binding]; other site 283166000331 motif 1; other site 283166000332 active site 283166000333 motif 2; other site 283166000334 motif 3; other site 283166000335 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 283166000336 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 283166000337 putative tRNA-binding site [nucleotide binding]; other site 283166000338 B3/4 domain; Region: B3_4; pfam03483 283166000339 tRNA synthetase B5 domain; Region: B5; smart00874 283166000340 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 283166000341 dimer interface [polypeptide binding]; other site 283166000342 motif 1; other site 283166000343 motif 3; other site 283166000344 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 283166000345 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 283166000346 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 283166000347 metal binding site [ion binding]; metal-binding site 283166000348 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 283166000349 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 283166000350 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 283166000351 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 283166000352 ABC-ATPase subunit interface; other site 283166000353 dimer interface [polypeptide binding]; other site 283166000354 putative PBP binding regions; other site 283166000355 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 283166000356 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 283166000357 ABC-ATPase subunit interface; other site 283166000358 dimer interface [polypeptide binding]; other site 283166000359 putative PBP binding regions; other site 283166000360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 283166000361 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 283166000362 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 283166000363 active site 283166000364 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 283166000365 Putative glucoamylase; Region: Glycoamylase; pfam10091 283166000366 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 283166000367 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 283166000368 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 283166000369 Protein of unknown function, DUF608; Region: DUF608; pfam04685 283166000370 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 283166000371 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 283166000372 RNA binding site [nucleotide binding]; other site 283166000373 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 283166000374 RNA binding site [nucleotide binding]; other site 283166000375 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 283166000376 RNA binding site [nucleotide binding]; other site 283166000377 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 283166000378 RNA binding site [nucleotide binding]; other site 283166000379 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 283166000380 RNA binding site [nucleotide binding]; other site 283166000381 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 283166000382 RNA binding site [nucleotide binding]; other site 283166000383 cytidylate kinase; Provisional; Region: cmk; PRK00023 283166000384 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 283166000385 CMP-binding site; other site 283166000386 The sites determining sugar specificity; other site 283166000387 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 283166000388 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 283166000389 hinge; other site 283166000390 active site 283166000391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 283166000392 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 283166000393 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 283166000394 Identified by comparison to Bartonella henselae;Prophage integrase 283166000395 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 283166000396 MutS domain I; Region: MutS_I; pfam01624 283166000397 MutS domain II; Region: MutS_II; pfam05188 283166000398 MutS domain III; Region: MutS_III; pfam05192 283166000399 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 283166000400 Walker A/P-loop; other site 283166000401 ATP binding site [chemical binding]; other site 283166000402 Q-loop/lid; other site 283166000403 ABC transporter signature motif; other site 283166000404 Walker B; other site 283166000405 D-loop; other site 283166000406 H-loop/switch region; other site 283166000407 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 283166000408 Malic enzyme, N-terminal domain; Region: malic; pfam00390 283166000409 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 283166000410 putative NAD(P) binding site [chemical binding]; other site 283166000411 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 283166000412 preprotein translocase subunit SecB; Validated; Region: PRK05751 283166000413 SecA binding site; other site 283166000414 Preprotein binding site; other site 283166000415 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 283166000416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 283166000417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 283166000418 Smr domain; Region: Smr; pfam01713 283166000419 Identified by comparison to Bartonella henselae;Prophage integrase 283166000420 Identified by comparison to Bartonella henselae;Prophage integrase 283166000421 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 283166000422 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 283166000423 dimerization interface [polypeptide binding]; other site 283166000424 domain crossover interface; other site 283166000425 redox-dependent activation switch; other site 283166000426 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 283166000427 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 283166000428 inhibitor-cofactor binding pocket; inhibition site 283166000429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283166000430 catalytic residue [active] 283166000431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 283166000432 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 283166000433 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 283166000434 catalytic residues [active] 283166000435 central insert; other site 283166000436 heme exporter protein CcmC; Region: ccmC; TIGR01191 283166000437 CcmB protein; Region: CcmB; cl17444 283166000438 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 283166000439 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283166000440 Walker A/P-loop; other site 283166000441 ATP binding site [chemical binding]; other site 283166000442 Q-loop/lid; other site 283166000443 ABC transporter signature motif; other site 283166000444 Walker B; other site 283166000445 D-loop; other site 283166000446 H-loop/switch region; other site 283166000447 aconitate hydratase; Validated; Region: PRK09277 283166000448 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 283166000449 substrate binding site [chemical binding]; other site 283166000450 ligand binding site [chemical binding]; other site 283166000451 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 283166000452 substrate binding site [chemical binding]; other site 283166000453 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 283166000454 DnaA N-terminal domain; Region: DnaA_N; pfam11638 283166000455 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 283166000456 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 283166000457 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 283166000458 DnaA box-binding interface [nucleotide binding]; other site 283166000459 DNA polymerase III subunit beta; Validated; Region: PRK05643 283166000460 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 283166000461 putative DNA binding surface [nucleotide binding]; other site 283166000462 dimer interface [polypeptide binding]; other site 283166000463 beta-clamp/clamp loader binding surface; other site 283166000464 beta-clamp/translesion DNA polymerase binding surface; other site 283166000465 recombination protein F; Reviewed; Region: recF; PRK00064 283166000466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283166000467 Walker A/P-loop; other site 283166000468 ATP binding site [chemical binding]; other site 283166000469 Q-loop/lid; other site 283166000470 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283166000471 ABC transporter signature motif; other site 283166000472 Walker B; other site 283166000473 D-loop; other site 283166000474 H-loop/switch region; other site 283166000475 Dehydroquinase class II; Region: DHquinase_II; pfam01220 283166000476 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 283166000477 trimer interface [polypeptide binding]; other site 283166000478 active site 283166000479 dimer interface [polypeptide binding]; other site 283166000480 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 283166000481 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 283166000482 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 283166000483 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 283166000484 D-pathway; other site 283166000485 Putative ubiquinol binding site [chemical binding]; other site 283166000486 Low-spin heme (heme b) binding site [chemical binding]; other site 283166000487 Putative water exit pathway; other site 283166000488 Binuclear center (heme o3/CuB) [ion binding]; other site 283166000489 K-pathway; other site 283166000490 Putative proton exit pathway; other site 283166000491 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 283166000492 Subunit I/III interface [polypeptide binding]; other site 283166000493 Subunit III/IV interface [polypeptide binding]; other site 283166000494 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 283166000495 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 283166000496 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 283166000497 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 283166000498 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 283166000499 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 283166000500 NAD binding site [chemical binding]; other site 283166000501 homotetramer interface [polypeptide binding]; other site 283166000502 homodimer interface [polypeptide binding]; other site 283166000503 substrate binding site [chemical binding]; other site 283166000504 active site 283166000505 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 283166000506 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 283166000507 dimer interface [polypeptide binding]; other site 283166000508 active site 283166000509 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 283166000510 active site 1 [active] 283166000511 dimer interface [polypeptide binding]; other site 283166000512 active site 2 [active] 283166000513 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 283166000514 metal binding site 2 [ion binding]; metal-binding site 283166000515 putative DNA binding helix; other site 283166000516 metal binding site 1 [ion binding]; metal-binding site 283166000517 dimer interface [polypeptide binding]; other site 283166000518 structural Zn2+ binding site [ion binding]; other site 283166000519 Bacterial SH3 domain; Region: SH3_4; pfam06347 283166000520 Bacterial SH3 domain; Region: SH3_4; pfam06347 283166000521 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 283166000522 Identified by comparison to Sinorhizobium meliloti;formate-tetrahydrofo 283166000523 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283166000524 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 283166000525 HlyD family secretion protein; Region: HlyD_3; pfam13437 283166000526 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 283166000527 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 283166000528 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 283166000529 active site 283166000530 dimer interface [polypeptide binding]; other site 283166000531 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 283166000532 dimer interface [polypeptide binding]; other site 283166000533 active site 283166000534 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 283166000535 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 283166000536 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 283166000537 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 283166000538 active site 283166000539 phosphorylation site [posttranslational modification] 283166000540 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 283166000541 dimerization domain swap beta strand [polypeptide binding]; other site 283166000542 regulatory protein interface [polypeptide binding]; other site 283166000543 active site 283166000544 regulatory phosphorylation site [posttranslational modification]; other site 283166000545 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 283166000546 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 283166000547 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 283166000548 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 283166000549 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283166000550 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 283166000551 non-specific DNA binding site [nucleotide binding]; other site 283166000552 salt bridge; other site 283166000553 sequence-specific DNA binding site [nucleotide binding]; other site 283166000554 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283166000555 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 283166000556 non-specific DNA binding site [nucleotide binding]; other site 283166000557 salt bridge; other site 283166000558 sequence-specific DNA binding site [nucleotide binding]; other site 283166000559 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 283166000560 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 283166000561 trimer interface [polypeptide binding]; other site 283166000562 Haemagglutinin; Region: HIM; pfam05662 283166000563 YadA-like C-terminal region; Region: YadA; pfam03895 283166000564 YadA-like C-terminal region; Region: YadA; pfam03895 283166000565 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 283166000566 trimer interface [polypeptide binding]; other site 283166000567 Haemagglutinin; Region: HIM; pfam05662 283166000568 YadA-like C-terminal region; Region: YadA; pfam03895 283166000569 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 283166000570 exopolyphosphatase; Region: exo_poly_only; TIGR03706 283166000571 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 283166000572 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 283166000573 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 283166000574 S-adenosylmethionine binding site [chemical binding]; other site 283166000575 GTPase CgtA; Reviewed; Region: obgE; PRK12299 283166000576 GTP1/OBG; Region: GTP1_OBG; pfam01018 283166000577 Obg GTPase; Region: Obg; cd01898 283166000578 G1 box; other site 283166000579 GTP/Mg2+ binding site [chemical binding]; other site 283166000580 Switch I region; other site 283166000581 G2 box; other site 283166000582 G3 box; other site 283166000583 Switch II region; other site 283166000584 G4 box; other site 283166000585 G5 box; other site 283166000586 gamma-glutamyl kinase; Provisional; Region: PRK05429 283166000587 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 283166000588 nucleotide binding site [chemical binding]; other site 283166000589 homotetrameric interface [polypeptide binding]; other site 283166000590 putative phosphate binding site [ion binding]; other site 283166000591 putative allosteric binding site; other site 283166000592 PUA domain; Region: PUA; pfam01472 283166000593 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 283166000594 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 283166000595 putative catalytic cysteine [active] 283166000596 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 283166000597 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 283166000598 active site 283166000599 (T/H)XGH motif; other site 283166000600 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 283166000601 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 283166000602 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 283166000603 Peptidase family M23; Region: Peptidase_M23; pfam01551 283166000604 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 283166000605 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 283166000606 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 283166000607 protein binding site [polypeptide binding]; other site 283166000608 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 283166000609 Catalytic dyad [active] 283166000610 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 283166000611 putative active site [active] 283166000612 Ap4A binding site [chemical binding]; other site 283166000613 nudix motif; other site 283166000614 putative metal binding site [ion binding]; other site 283166000615 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 283166000616 YGGT family; Region: YGGT; pfam02325 283166000617 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 283166000618 Identified by comparison to Bartonella henselae;Prophage integrase 283166000619 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 283166000620 dimer interface [polypeptide binding]; other site 283166000621 substrate binding site [chemical binding]; other site 283166000622 metal binding sites [ion binding]; metal-binding site 283166000623 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 283166000624 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 283166000625 G1 box; other site 283166000626 putative GEF interaction site [polypeptide binding]; other site 283166000627 GTP/Mg2+ binding site [chemical binding]; other site 283166000628 Switch I region; other site 283166000629 G2 box; other site 283166000630 G3 box; other site 283166000631 Switch II region; other site 283166000632 G4 box; other site 283166000633 G5 box; other site 283166000634 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 283166000635 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 283166000636 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 283166000637 MgtE intracellular N domain; Region: MgtE_N; pfam03448 283166000638 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 283166000639 Divalent cation transporter; Region: MgtE; pfam01769 283166000640 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 283166000641 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 283166000642 active site 283166000643 Zn binding site [ion binding]; other site 283166000644 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 283166000645 active site 283166000646 catalytic triad [active] 283166000647 oxyanion hole [active] 283166000648 Transglycosylase SLT domain; Region: SLT_2; pfam13406 283166000649 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 283166000650 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283166000651 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 283166000652 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 283166000653 active site 283166000654 tetramer interface; other site 283166000655 KpsF/GutQ family protein; Region: kpsF; TIGR00393 283166000656 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 283166000657 putative active site [active] 283166000658 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 283166000659 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 283166000660 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 283166000661 active site 283166000662 phosphorylation site [posttranslational modification] 283166000663 intermolecular recognition site; other site 283166000664 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 283166000665 Walker A motif; other site 283166000666 ATP binding site [chemical binding]; other site 283166000667 Walker B motif; other site 283166000668 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 283166000669 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 283166000670 PLD-like domain; Region: PLDc_2; pfam13091 283166000671 putative active site [active] 283166000672 catalytic site [active] 283166000673 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 283166000674 PLD-like domain; Region: PLDc_2; pfam13091 283166000675 putative active site [active] 283166000676 catalytic site [active] 283166000677 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 283166000678 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 283166000679 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 283166000680 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 283166000681 active site 283166000682 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 283166000683 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 283166000684 GMP synthase; Reviewed; Region: guaA; PRK00074 283166000685 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 283166000686 AMP/PPi binding site [chemical binding]; other site 283166000687 candidate oxyanion hole; other site 283166000688 catalytic triad [active] 283166000689 potential glutamine specificity residues [chemical binding]; other site 283166000690 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 283166000691 ATP Binding subdomain [chemical binding]; other site 283166000692 Ligand Binding sites [chemical binding]; other site 283166000693 Dimerization subdomain; other site 283166000694 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 283166000695 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 283166000696 active site 283166000697 catalytic site [active] 283166000698 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 283166000699 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 283166000700 Walker A/P-loop; other site 283166000701 ATP binding site [chemical binding]; other site 283166000702 Q-loop/lid; other site 283166000703 ABC transporter signature motif; other site 283166000704 Walker B; other site 283166000705 D-loop; other site 283166000706 H-loop/switch region; other site 283166000707 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 283166000708 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 283166000709 dimer interface [polypeptide binding]; other site 283166000710 conserved gate region; other site 283166000711 putative PBP binding loops; other site 283166000712 ABC-ATPase subunit interface; other site 283166000713 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 283166000714 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 283166000715 dimer interface [polypeptide binding]; other site 283166000716 conserved gate region; other site 283166000717 putative PBP binding loops; other site 283166000718 ABC-ATPase subunit interface; other site 283166000719 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 283166000720 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 283166000721 Identified by comparison to Bartonella henselae;Prophage integrase 283166000722 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 283166000723 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 283166000724 metal binding site [ion binding]; metal-binding site 283166000725 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 283166000726 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 283166000727 ABC-ATPase subunit interface; other site 283166000728 dimer interface [polypeptide binding]; other site 283166000729 putative PBP binding regions; other site 283166000730 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 283166000731 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 283166000732 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 283166000733 catalytic residues [active] 283166000734 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 283166000735 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 283166000736 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 283166000737 Class I ribonucleotide reductase; Region: RNR_I; cd01679 283166000738 active site 283166000739 dimer interface [polypeptide binding]; other site 283166000740 catalytic residues [active] 283166000741 effector binding site; other site 283166000742 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 283166000743 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 283166000744 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 283166000745 dimer interface [polypeptide binding]; other site 283166000746 putative radical transfer pathway; other site 283166000747 diiron center [ion binding]; other site 283166000748 tyrosyl radical; other site 283166000749 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 283166000750 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 283166000751 S-adenosylmethionine binding site [chemical binding]; other site 283166000752 peptide chain release factor 1; Validated; Region: prfA; PRK00591 283166000753 This domain is found in peptide chain release factors; Region: PCRF; smart00937 283166000754 RF-1 domain; Region: RF-1; pfam00472 283166000755 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 283166000756 metal binding site 2 [ion binding]; metal-binding site 283166000757 putative DNA binding helix; other site 283166000758 metal binding site 1 [ion binding]; metal-binding site 283166000759 dimer interface [polypeptide binding]; other site 283166000760 structural Zn2+ binding site [ion binding]; other site 283166000761 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 283166000762 DEAD/DEAH box helicase; Region: DEAD; pfam00270 283166000763 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 283166000764 SEC-C motif; Region: SEC-C; pfam02810 283166000765 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 283166000766 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 283166000767 heterotetramer interface [polypeptide binding]; other site 283166000768 active site pocket [active] 283166000769 cleavage site 283166000770 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 283166000771 active site 283166000772 8-oxo-dGMP binding site [chemical binding]; other site 283166000773 nudix motif; other site 283166000774 metal binding site [ion binding]; metal-binding site 283166000775 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 283166000776 NlpC/P60 family; Region: NLPC_P60; cl17555 283166000777 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 283166000778 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 283166000779 interface (dimer of trimers) [polypeptide binding]; other site 283166000780 Substrate-binding/catalytic site; other site 283166000781 Zn-binding sites [ion binding]; other site 283166000782 pantothenate kinase; Provisional; Region: PRK05439 283166000783 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 283166000784 ATP-binding site [chemical binding]; other site 283166000785 CoA-binding site [chemical binding]; other site 283166000786 Mg2+-binding site [ion binding]; other site 283166000787 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 283166000788 active site 283166000789 homotetramer interface [polypeptide binding]; other site 283166000790 homodimer interface [polypeptide binding]; other site 283166000791 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 283166000792 active site 283166000793 HslU subunit interaction site [polypeptide binding]; other site 283166000794 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 283166000795 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 283166000796 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 283166000797 Walker A motif; other site 283166000798 ATP binding site [chemical binding]; other site 283166000799 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 283166000800 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 283166000801 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 283166000802 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 283166000803 S-adenosylmethionine binding site [chemical binding]; other site 283166000804 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 283166000805 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 283166000806 RNase E interface [polypeptide binding]; other site 283166000807 trimer interface [polypeptide binding]; other site 283166000808 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 283166000809 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 283166000810 RNase E interface [polypeptide binding]; other site 283166000811 trimer interface [polypeptide binding]; other site 283166000812 active site 283166000813 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 283166000814 putative nucleic acid binding region [nucleotide binding]; other site 283166000815 G-X-X-G motif; other site 283166000816 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 283166000817 RNA binding site [nucleotide binding]; other site 283166000818 domain interface; other site 283166000819 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 283166000820 16S/18S rRNA binding site [nucleotide binding]; other site 283166000821 S13e-L30e interaction site [polypeptide binding]; other site 283166000822 25S rRNA binding site [nucleotide binding]; other site 283166000823 Transmembrane secretion effector; Region: MFS_3; pfam05977 283166000824 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 283166000825 putative substrate translocation pore; other site 283166000826 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 283166000827 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 283166000828 RNA binding site [nucleotide binding]; other site 283166000829 active site 283166000830 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 283166000831 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 283166000832 translation initiation factor IF-2; Validated; Region: infB; PRK05306 283166000833 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 283166000834 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 283166000835 G1 box; other site 283166000836 putative GEF interaction site [polypeptide binding]; other site 283166000837 GTP/Mg2+ binding site [chemical binding]; other site 283166000838 Switch I region; other site 283166000839 G2 box; other site 283166000840 G3 box; other site 283166000841 Switch II region; other site 283166000842 G4 box; other site 283166000843 G5 box; other site 283166000844 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 283166000845 Translation-initiation factor 2; Region: IF-2; pfam11987 283166000846 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 283166000847 hypothetical protein; Provisional; Region: PRK09190 283166000848 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 283166000849 putative RNA binding cleft [nucleotide binding]; other site 283166000850 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 283166000851 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 283166000852 NusA N-terminal domain; Region: NusA_N; pfam08529 283166000853 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 283166000854 RNA binding site [nucleotide binding]; other site 283166000855 homodimer interface [polypeptide binding]; other site 283166000856 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 283166000857 G-X-X-G motif; other site 283166000858 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 283166000859 G-X-X-G motif; other site 283166000860 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 283166000861 ribosome maturation protein RimP; Reviewed; Region: PRK00092 283166000862 Sm and related proteins; Region: Sm_like; cl00259 283166000863 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 283166000864 putative oligomer interface [polypeptide binding]; other site 283166000865 putative RNA binding site [nucleotide binding]; other site 283166000866 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 283166000867 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 283166000868 S-adenosylmethionine synthetase; Validated; Region: PRK05250 283166000869 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 283166000870 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 283166000871 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283166000872 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 283166000873 non-specific DNA binding site [nucleotide binding]; other site 283166000874 salt bridge; other site 283166000875 sequence-specific DNA binding site [nucleotide binding]; other site 283166000876 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 283166000877 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 283166000878 putative active site [active] 283166000879 catalytic triad [active] 283166000880 putative dimer interface [polypeptide binding]; other site 283166000881 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 283166000882 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 283166000883 Transporter associated domain; Region: CorC_HlyC; smart01091 283166000884 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 283166000885 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 283166000886 PhoH-like protein; Region: PhoH; pfam02562 283166000887 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 283166000888 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 283166000889 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 283166000890 FeS/SAM binding site; other site 283166000891 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 283166000892 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283166000893 Coenzyme A binding pocket [chemical binding]; other site 283166000894 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 283166000895 Glycoprotease family; Region: Peptidase_M22; pfam00814 283166000896 Predicted membrane protein [Function unknown]; Region: COG2855 283166000897 recombination protein RecR; Reviewed; Region: recR; PRK00076 283166000898 RecR protein; Region: RecR; pfam02132 283166000899 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 283166000900 putative active site [active] 283166000901 putative metal-binding site [ion binding]; other site 283166000902 tetramer interface [polypeptide binding]; other site 283166000903 hypothetical protein; Validated; Region: PRK00153 283166000904 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 283166000905 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 283166000906 Walker A motif; other site 283166000907 ATP binding site [chemical binding]; other site 283166000908 Walker B motif; other site 283166000909 arginine finger; other site 283166000910 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 283166000911 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 283166000912 prephenate dehydratase; Provisional; Region: PRK11899 283166000913 Prephenate dehydratase; Region: PDT; pfam00800 283166000914 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 283166000915 putative L-Phe binding site [chemical binding]; other site 283166000916 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 283166000917 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 283166000918 Ligand binding site; other site 283166000919 oligomer interface; other site 283166000920 Cytochrome c2 [Energy production and conversion]; Region: COG3474 283166000921 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 283166000922 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 283166000923 dimer interface [polypeptide binding]; other site 283166000924 conserved gate region; other site 283166000925 putative PBP binding loops; other site 283166000926 ABC-ATPase subunit interface; other site 283166000927 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 283166000928 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 283166000929 dimer interface [polypeptide binding]; other site 283166000930 conserved gate region; other site 283166000931 putative PBP binding loops; other site 283166000932 ABC-ATPase subunit interface; other site 283166000933 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 283166000934 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 283166000935 Walker A/P-loop; other site 283166000936 ATP binding site [chemical binding]; other site 283166000937 Q-loop/lid; other site 283166000938 ABC transporter signature motif; other site 283166000939 Walker B; other site 283166000940 D-loop; other site 283166000941 H-loop/switch region; other site 283166000942 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 283166000943 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 283166000944 Walker A/P-loop; other site 283166000945 ATP binding site [chemical binding]; other site 283166000946 Q-loop/lid; other site 283166000947 ABC transporter signature motif; other site 283166000948 Walker B; other site 283166000949 D-loop; other site 283166000950 H-loop/switch region; other site 283166000951 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 283166000952 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 283166000953 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 283166000954 ATP binding site [chemical binding]; other site 283166000955 substrate interface [chemical binding]; other site 283166000956 glutathione synthetase; Provisional; Region: PRK05246 283166000957 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 283166000958 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 283166000959 PBP superfamily domain; Region: PBP_like_2; pfam12849 283166000960 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 283166000961 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 283166000962 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 283166000963 dimer interface [polypeptide binding]; other site 283166000964 conserved gate region; other site 283166000965 putative PBP binding loops; other site 283166000966 ABC-ATPase subunit interface; other site 283166000967 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 283166000968 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 283166000969 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 283166000970 dimer interface [polypeptide binding]; other site 283166000971 conserved gate region; other site 283166000972 putative PBP binding loops; other site 283166000973 ABC-ATPase subunit interface; other site 283166000974 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 283166000975 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 283166000976 Walker A/P-loop; other site 283166000977 ATP binding site [chemical binding]; other site 283166000978 Q-loop/lid; other site 283166000979 ABC transporter signature motif; other site 283166000980 Walker B; other site 283166000981 D-loop; other site 283166000982 H-loop/switch region; other site 283166000983 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 283166000984 PhoU domain; Region: PhoU; pfam01895 283166000985 PhoU domain; Region: PhoU; pfam01895 283166000986 Identified by comparison to Bartonella henselae;integrase-recombinase 283166000987 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 283166000988 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 283166000989 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 283166000990 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 283166000991 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 283166000992 DNA binding site [nucleotide binding] 283166000993 catalytic residue [active] 283166000994 H2TH interface [polypeptide binding]; other site 283166000995 putative catalytic residues [active] 283166000996 turnover-facilitating residue; other site 283166000997 intercalation triad [nucleotide binding]; other site 283166000998 8OG recognition residue [nucleotide binding]; other site 283166000999 putative reading head residues; other site 283166001000 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 283166001001 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 283166001002 hypothetical protein; Validated; Region: PRK09104 283166001003 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 283166001004 metal binding site [ion binding]; metal-binding site 283166001005 putative dimer interface [polypeptide binding]; other site 283166001006 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 283166001007 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 283166001008 catalytic site [active] 283166001009 putative active site [active] 283166001010 putative substrate binding site [chemical binding]; other site 283166001011 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 283166001012 Porin subfamily; Region: Porin_2; pfam02530 283166001013 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 283166001014 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 283166001015 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 283166001016 active site 283166001017 HIGH motif; other site 283166001018 nucleotide binding site [chemical binding]; other site 283166001019 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 283166001020 active site 283166001021 KMSKS motif; other site 283166001022 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 283166001023 tRNA binding surface [nucleotide binding]; other site 283166001024 anticodon binding site; other site 283166001025 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 283166001026 nucleoside/Zn binding site; other site 283166001027 dimer interface [polypeptide binding]; other site 283166001028 catalytic motif [active] 283166001029 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 283166001030 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 283166001031 RNA binding surface [nucleotide binding]; other site 283166001032 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 283166001033 active site 283166001034 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 283166001035 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 283166001036 S-adenosylmethionine binding site [chemical binding]; other site 283166001037 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 283166001038 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 283166001039 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 283166001040 active site 283166001041 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 283166001042 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 283166001043 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 283166001044 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 283166001045 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 283166001046 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; pfam09866 283166001047 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 283166001048 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 283166001049 ATP binding site [chemical binding]; other site 283166001050 Mg2+ binding site [ion binding]; other site 283166001051 G-X-G motif; other site 283166001052 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 283166001053 ATP binding site [chemical binding]; other site 283166001054 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 283166001055 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 283166001056 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 283166001057 trimer interface [polypeptide binding]; other site 283166001058 active site 283166001059 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 283166001060 trimer interface [polypeptide binding]; other site 283166001061 active site 283166001062 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 283166001063 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 283166001064 phosphate binding site [ion binding]; other site 283166001065 SlyX; Region: SlyX; cl01090 283166001066 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 283166001067 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 283166001068 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 283166001069 Walker A/P-loop; other site 283166001070 ATP binding site [chemical binding]; other site 283166001071 Q-loop/lid; other site 283166001072 ABC transporter signature motif; other site 283166001073 Walker B; other site 283166001074 D-loop; other site 283166001075 H-loop/switch region; other site 283166001076 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 283166001077 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 283166001078 Identified by comparison to Bartonella henselae;exonuclease 283166001079 Identified by comparison to Bartonella henselae 283166001080 Identified by comparison to Bartonella henselae 283166001081 Identified by comparison to Bartonella henselae;phage related 283166001082 Identified by comparison to Bartonella henselae;phage 283166001083 Helix-turn-helix domain; Region: HTH_19; pfam12844 283166001084 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 283166001085 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 283166001086 active site 283166001087 Int/Topo IB signature motif; other site 283166001088 AntA/AntB antirepressor; Region: AntA; pfam08346 283166001089 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 283166001090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 283166001091 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 283166001092 catalytic residues [active] 283166001093 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 283166001094 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 283166001095 AntA/AntB antirepressor; Region: AntA; cl01430 283166001096 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 283166001097 Identified by comparison to Bartonella henselae;anti-repressor 283166001098 AntA/AntB antirepressor; Region: AntA; cl01430 283166001099 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 283166001100 AntA/AntB antirepressor; Region: AntA; pfam08346 283166001101 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 283166001102 Phage Tail Protein X; Region: Phage_tail_X; cl02088 283166001103 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 283166001104 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 283166001105 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 283166001106 Phage tail tube protein FII; Region: Phage_tube; pfam04985 283166001107 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 283166001108 Identified by comparison to Bartonella henselae;anti-repressor 283166001109 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 283166001110 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 283166001111 non-specific DNA binding site [nucleotide binding]; other site 283166001112 salt bridge; other site 283166001113 sequence-specific DNA binding site [nucleotide binding]; other site 283166001114 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 283166001115 Phage tail repeat like; Region: PTR; pfam12789 283166001116 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 283166001117 Baseplate J-like protein; Region: Baseplate_J; cl01294 283166001118 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 283166001119 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 283166001120 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 283166001121 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 283166001122 HicB family; Region: HicB; pfam05534 283166001123 AntA/AntB antirepressor; Region: AntA; pfam08346 283166001124 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 283166001125 AntA/AntB antirepressor; Region: AntA; pfam08346 283166001126 Identified by comparison to Bartonella henselae;anti-repressor 283166001127 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 283166001128 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 283166001129 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 283166001130 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 283166001131 tandem repeat interface [polypeptide binding]; other site 283166001132 oligomer interface [polypeptide binding]; other site 283166001133 active site residues [active] 283166001134 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 283166001135 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 283166001136 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 283166001137 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 283166001138 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 283166001139 RelB antitoxin; Region: RelB; cl01171 283166001140 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 283166001141 AntA/AntB antirepressor; Region: AntA; pfam08346 283166001142 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 283166001143 AntA/AntB antirepressor; Region: AntA; pfam08346 283166001144 AntA/AntB antirepressor; Region: AntA; pfam08346 283166001145 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 283166001146 AntA/AntB antirepressor; Region: AntA; pfam08346 283166001147 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 283166001148 YcfA-like protein; Region: YcfA; pfam07927 283166001149 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 283166001150 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 283166001151 dimer interface [polypeptide binding]; other site 283166001152 ssDNA binding site [nucleotide binding]; other site 283166001153 tetramer (dimer of dimers) interface [polypeptide binding]; other site 283166001154 Identified by comparison to Bartonella henselae;vapD 283166001155 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 283166001156 non-specific DNA binding site [nucleotide binding]; other site 283166001157 salt bridge; other site 283166001158 sequence-specific DNA binding site [nucleotide binding]; other site 283166001159 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 283166001160 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 283166001161 active site 283166001162 ribonuclease Y; Region: RNase_Y; TIGR03319 283166001163 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 283166001164 non-specific DNA binding site [nucleotide binding]; other site 283166001165 salt bridge; other site 283166001166 sequence-specific DNA binding site [nucleotide binding]; other site 283166001167 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 283166001168 Catalytic site [active] 283166001169 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14535 283166001170 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 283166001171 AntA/AntB antirepressor; Region: AntA; pfam08346 283166001172 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 283166001173 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 283166001174 ERF superfamily; Region: ERF; pfam04404 283166001175 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 283166001176 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 283166001177 Helix-turn-helix domain; Region: HTH_17; pfam12728 283166001178 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 283166001179 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283166001180 catalytic residue [active] 283166001181 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 283166001182 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 283166001183 GDP-binding site [chemical binding]; other site 283166001184 ACT binding site; other site 283166001185 IMP binding site; other site 283166001186 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 283166001187 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 283166001188 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283166001189 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 283166001190 DNA binding residues [nucleotide binding] 283166001191 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 283166001192 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 283166001193 RNA binding surface [nucleotide binding]; other site 283166001194 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 283166001195 active site 283166001196 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 283166001197 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 283166001198 NAD binding site [chemical binding]; other site 283166001199 catalytic residues [active] 283166001200 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 283166001201 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 283166001202 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 283166001203 PAS domain; Region: PAS; smart00091 283166001204 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283166001205 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 283166001206 dimer interface [polypeptide binding]; other site 283166001207 phosphorylation site [posttranslational modification] 283166001208 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 283166001209 ATP binding site [chemical binding]; other site 283166001210 Mg2+ binding site [ion binding]; other site 283166001211 G-X-G motif; other site 283166001212 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 283166001213 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 283166001214 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 283166001215 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 283166001216 quinone interaction residues [chemical binding]; other site 283166001217 active site 283166001218 catalytic residues [active] 283166001219 FMN binding site [chemical binding]; other site 283166001220 substrate binding site [chemical binding]; other site 283166001221 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 283166001222 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 283166001223 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 283166001224 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 283166001225 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 283166001226 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 283166001227 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 283166001228 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 283166001229 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 283166001230 putative active site [active] 283166001231 phosphogluconate dehydratase; Validated; Region: PRK09054 283166001232 6-phosphogluconate dehydratase; Region: edd; TIGR01196 283166001233 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 283166001234 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 283166001235 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 283166001236 homodimer interface [polypeptide binding]; other site 283166001237 NADP binding site [chemical binding]; other site 283166001238 substrate binding site [chemical binding]; other site 283166001239 AsmA family; Region: AsmA; pfam05170 283166001240 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 283166001241 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 283166001242 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 283166001243 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 283166001244 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 283166001245 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 283166001246 Methyltransferase domain; Region: Methyltransf_11; pfam08241 283166001247 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 283166001248 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 283166001249 active site 283166001250 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 283166001251 GSH binding site [chemical binding]; other site 283166001252 catalytic residues [active] 283166001253 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 283166001254 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 283166001255 S-adenosylmethionine binding site [chemical binding]; other site 283166001256 aspartate kinase; Reviewed; Region: PRK06635 283166001257 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 283166001258 putative nucleotide binding site [chemical binding]; other site 283166001259 putative catalytic residues [active] 283166001260 putative Mg ion binding site [ion binding]; other site 283166001261 putative aspartate binding site [chemical binding]; other site 283166001262 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 283166001263 putative allosteric regulatory site; other site 283166001264 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 283166001265 putative allosteric regulatory residue; other site 283166001266 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 283166001267 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 283166001268 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 283166001269 TrkA-C domain; Region: TrkA_C; pfam02080 283166001270 TrkA-C domain; Region: TrkA_C; pfam02080 283166001271 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 283166001272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 283166001273 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 283166001274 GTP-binding protein Der; Reviewed; Region: PRK00093 283166001275 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 283166001276 G1 box; other site 283166001277 GTP/Mg2+ binding site [chemical binding]; other site 283166001278 Switch I region; other site 283166001279 G2 box; other site 283166001280 Switch II region; other site 283166001281 G3 box; other site 283166001282 G4 box; other site 283166001283 G5 box; other site 283166001284 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 283166001285 G1 box; other site 283166001286 GTP/Mg2+ binding site [chemical binding]; other site 283166001287 Switch I region; other site 283166001288 G2 box; other site 283166001289 G3 box; other site 283166001290 Switch II region; other site 283166001291 G4 box; other site 283166001292 G5 box; other site 283166001293 Identified by comparison to Bartonella henselae;Prophage integrase 283166001294 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 283166001295 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 283166001296 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 283166001297 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 283166001298 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 283166001299 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 283166001300 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 283166001301 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 283166001302 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 283166001303 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 283166001304 dimer interface [polypeptide binding]; other site 283166001305 motif 1; other site 283166001306 active site 283166001307 motif 2; other site 283166001308 motif 3; other site 283166001309 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 283166001310 binding surface 283166001311 TPR motif; other site 283166001312 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 283166001313 binding surface 283166001314 TPR motif; other site 283166001315 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 283166001316 binding surface 283166001317 TPR motif; other site 283166001318 TPR repeat; Region: TPR_11; pfam13414 283166001319 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 283166001320 binding surface 283166001321 TPR motif; other site 283166001322 TPR repeat; Region: TPR_11; pfam13414 283166001323 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 283166001324 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 283166001325 substrate binding pocket [chemical binding]; other site 283166001326 chain length determination region; other site 283166001327 substrate-Mg2+ binding site; other site 283166001328 catalytic residues [active] 283166001329 aspartate-rich region 1; other site 283166001330 active site lid residues [active] 283166001331 aspartate-rich region 2; other site 283166001332 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 283166001333 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 283166001334 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 283166001335 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 283166001336 tandem repeat interface [polypeptide binding]; other site 283166001337 oligomer interface [polypeptide binding]; other site 283166001338 active site residues [active] 283166001339 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 283166001340 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 283166001341 Identified by comparison to Bartonella henselae;integrase-recombinase 283166001342 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 283166001343 RNA/DNA hybrid binding site [nucleotide binding]; other site 283166001344 active site 283166001345 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 283166001346 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 283166001347 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 283166001348 FAD binding domain; Region: FAD_binding_4; pfam01565 283166001349 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 283166001350 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 283166001351 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 283166001352 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 283166001353 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 283166001354 UbiA prenyltransferase family; Region: UbiA; pfam01040 283166001355 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 283166001356 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 283166001357 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 283166001358 chaperone protein DnaJ; Provisional; Region: PRK14299 283166001359 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 283166001360 HSP70 interaction site [polypeptide binding]; other site 283166001361 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 283166001362 dimer interface [polypeptide binding]; other site 283166001363 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 283166001364 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 283166001365 NAD binding site [chemical binding]; other site 283166001366 homotetramer interface [polypeptide binding]; other site 283166001367 homodimer interface [polypeptide binding]; other site 283166001368 substrate binding site [chemical binding]; other site 283166001369 active site 283166001370 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 283166001371 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 283166001372 Tetramer interface [polypeptide binding]; other site 283166001373 active site 283166001374 FMN-binding site [chemical binding]; other site 283166001375 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 283166001376 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 283166001377 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 283166001378 dimerization interface [polypeptide binding]; other site 283166001379 active site 283166001380 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 283166001381 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 283166001382 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 283166001383 TPP-binding site; other site 283166001384 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 283166001385 PYR/PP interface [polypeptide binding]; other site 283166001386 dimer interface [polypeptide binding]; other site 283166001387 TPP binding site [chemical binding]; other site 283166001388 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 283166001389 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 283166001390 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 283166001391 RNA binding surface [nucleotide binding]; other site 283166001392 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 283166001393 S-adenosylmethionine binding site [chemical binding]; other site 283166001394 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 283166001395 Methyltransferase domain; Region: Methyltransf_26; pfam13659 283166001396 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 283166001397 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 283166001398 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 283166001399 UbiA prenyltransferase family; Region: UbiA; pfam01040 283166001400 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 283166001401 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 283166001402 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 283166001403 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 283166001404 putative active site [active] 283166001405 putative substrate binding site [chemical binding]; other site 283166001406 ATP binding site [chemical binding]; other site 283166001407 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 283166001408 RNA/DNA hybrid binding site [nucleotide binding]; other site 283166001409 active site 283166001410 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 283166001411 hypothetical protein; Validated; Region: PRK00228 283166001412 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 283166001413 PAS fold; Region: PAS_3; pfam08447 283166001414 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283166001415 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283166001416 metal binding site [ion binding]; metal-binding site 283166001417 active site 283166001418 I-site; other site 283166001419 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 283166001420 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 283166001421 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 283166001422 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 283166001423 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 283166001424 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 283166001425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283166001426 catalytic residue [active] 283166001427 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 283166001428 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 283166001429 motif II; other site 283166001430 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 283166001431 DNA methylase; Region: N6_N4_Mtase; pfam01555 283166001432 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 283166001433 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 283166001434 minor groove reading motif; other site 283166001435 helix-hairpin-helix signature motif; other site 283166001436 substrate binding pocket [chemical binding]; other site 283166001437 active site 283166001438 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 283166001439 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 283166001440 DNA binding and oxoG recognition site [nucleotide binding] 283166001441 Protein of unknown function (DUF721); Region: DUF721; cl02324 283166001442 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 283166001443 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 283166001444 catalytic residues [active] 283166001445 pyruvate phosphate dikinase; Provisional; Region: PRK09279 283166001446 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 283166001447 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 283166001448 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 283166001449 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 283166001450 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 283166001451 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 283166001452 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 283166001453 Predicted transcriptional regulator [Transcription]; Region: COG4957 283166001454 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 283166001455 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283166001456 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 283166001457 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 283166001458 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 283166001459 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 283166001460 Predicted integral membrane protein [Function unknown]; Region: COG5436 283166001461 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 283166001462 Transglycosylase; Region: Transgly; pfam00912 283166001463 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 283166001464 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 283166001465 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 283166001466 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 283166001467 active site 283166001468 phosphorylation site [posttranslational modification] 283166001469 intermolecular recognition site; other site 283166001470 dimerization interface [polypeptide binding]; other site 283166001471 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 283166001472 DNA binding site [nucleotide binding] 283166001473 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283166001474 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 283166001475 ATP binding site [chemical binding]; other site 283166001476 Mg2+ binding site [ion binding]; other site 283166001477 G-X-G motif; other site 283166001478 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 283166001479 TPR motif; other site 283166001480 binding surface 283166001481 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 283166001482 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 283166001483 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 283166001484 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 283166001485 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 283166001486 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 283166001487 protein binding site [polypeptide binding]; other site 283166001488 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 283166001489 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 283166001490 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 283166001491 active site 283166001492 phosphorylation site [posttranslational modification] 283166001493 intermolecular recognition site; other site 283166001494 dimerization interface [polypeptide binding]; other site 283166001495 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 283166001496 DNA binding site [nucleotide binding] 283166001497 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283166001498 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 283166001499 dimerization interface [polypeptide binding]; other site 283166001500 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 283166001501 dimer interface [polypeptide binding]; other site 283166001502 phosphorylation site [posttranslational modification] 283166001503 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 283166001504 ATP binding site [chemical binding]; other site 283166001505 Mg2+ binding site [ion binding]; other site 283166001506 G-X-G motif; other site 283166001507 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 283166001508 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 283166001509 metal binding triad; other site 283166001510 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 283166001511 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 283166001512 metal binding triad; other site 283166001513 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 283166001514 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 283166001515 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 283166001516 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 283166001517 DNA binding site [nucleotide binding] 283166001518 active site 283166001519 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 283166001520 PAS fold; Region: PAS_3; pfam08447 283166001521 putative active site [active] 283166001522 heme pocket [chemical binding]; other site 283166001523 PAS fold; Region: PAS_7; pfam12860 283166001524 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283166001525 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 283166001526 dimer interface [polypeptide binding]; other site 283166001527 phosphorylation site [posttranslational modification] 283166001528 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 283166001529 ATP binding site [chemical binding]; other site 283166001530 Mg2+ binding site [ion binding]; other site 283166001531 G-X-G motif; other site 283166001532 aminopeptidase N; Provisional; Region: pepN; PRK14015 283166001533 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 283166001534 active site 283166001535 Zn binding site [ion binding]; other site 283166001536 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 283166001537 Fe-S cluster binding site [ion binding]; other site 283166001538 active site 283166001539 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 283166001540 substrate binding site [chemical binding]; other site 283166001541 dimer interface [polypeptide binding]; other site 283166001542 ATP binding site [chemical binding]; other site 283166001543 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 283166001544 thiamine phosphate binding site [chemical binding]; other site 283166001545 active site 283166001546 pyrophosphate binding site [ion binding]; other site 283166001547 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 283166001548 ThiS interaction site; other site 283166001549 putative active site [active] 283166001550 tetramer interface [polypeptide binding]; other site 283166001551 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 283166001552 thiS-thiF/thiG interaction site; other site 283166001553 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 283166001554 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 283166001555 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 283166001556 ThiC-associated domain; Region: ThiC-associated; pfam13667 283166001557 ThiC family; Region: ThiC; pfam01964 283166001558 Phage Tail Collar Domain; Region: Collar; pfam07484 283166001559 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 283166001560 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 283166001561 Walker A/P-loop; other site 283166001562 ATP binding site [chemical binding]; other site 283166001563 Q-loop/lid; other site 283166001564 ABC transporter signature motif; other site 283166001565 Walker B; other site 283166001566 D-loop; other site 283166001567 H-loop/switch region; other site 283166001568 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 283166001569 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 283166001570 ABC-ATPase subunit interface; other site 283166001571 dimer interface [polypeptide binding]; other site 283166001572 putative PBP binding regions; other site 283166001573 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 283166001574 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 283166001575 putative hemin binding site; other site 283166001576 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 283166001577 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 283166001578 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 283166001579 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 283166001580 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 283166001581 N-terminal plug; other site 283166001582 ligand-binding site [chemical binding]; other site 283166001583 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 283166001584 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 283166001585 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 283166001586 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 283166001587 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283166001588 catalytic residue [active] 283166001589 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 283166001590 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 283166001591 dimer interface [polypeptide binding]; other site 283166001592 active site 283166001593 catalytic residue [active] 283166001594 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 283166001595 SmpB-tmRNA interface; other site 283166001596 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 283166001597 Fe-S cluster binding site [ion binding]; other site 283166001598 DNA binding site [nucleotide binding] 283166001599 active site 283166001600 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 283166001601 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 283166001602 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 283166001603 Zn2+ binding site [ion binding]; other site 283166001604 Mg2+ binding site [ion binding]; other site 283166001605 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 283166001606 synthetase active site [active] 283166001607 NTP binding site [chemical binding]; other site 283166001608 metal binding site [ion binding]; metal-binding site 283166001609 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 283166001610 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 283166001611 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 283166001612 active site 283166001613 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 283166001614 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 283166001615 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 283166001616 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 283166001617 Catalytic site [active] 283166001618 ribonuclease III; Reviewed; Region: PRK12371 283166001619 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 283166001620 dimerization interface [polypeptide binding]; other site 283166001621 active site 283166001622 metal binding site [ion binding]; metal-binding site 283166001623 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 283166001624 dsRNA binding site [nucleotide binding]; other site 283166001625 GTPase Era; Reviewed; Region: era; PRK00089 283166001626 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 283166001627 G1 box; other site 283166001628 GTP/Mg2+ binding site [chemical binding]; other site 283166001629 Switch I region; other site 283166001630 G2 box; other site 283166001631 Switch II region; other site 283166001632 G3 box; other site 283166001633 G4 box; other site 283166001634 G5 box; other site 283166001635 KH domain; Region: KH_2; pfam07650 283166001636 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 283166001637 Recombination protein O N terminal; Region: RecO_N; pfam11967 283166001638 Recombination protein O C terminal; Region: RecO_C; pfam02565 283166001639 pantoate--beta-alanine ligase; Region: panC; TIGR00018 283166001640 Pantoate-beta-alanine ligase; Region: PanC; cd00560 283166001641 active site 283166001642 ATP-binding site [chemical binding]; other site 283166001643 pantoate-binding site; other site 283166001644 HXXH motif; other site 283166001645 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 283166001646 oligomerization interface [polypeptide binding]; other site 283166001647 active site 283166001648 metal binding site [ion binding]; metal-binding site 283166001649 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 283166001650 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 283166001651 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 283166001652 dihydroorotase; Validated; Region: PRK09060 283166001653 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 283166001654 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 283166001655 active site 283166001656 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 283166001657 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 283166001658 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 283166001659 active site 283166001660 HIGH motif; other site 283166001661 nucleotide binding site [chemical binding]; other site 283166001662 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 283166001663 KMSKS motif; other site 283166001664 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 283166001665 Predicted membrane protein [Function unknown]; Region: COG2323 283166001666 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 283166001667 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 283166001668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283166001669 Walker A/P-loop; other site 283166001670 ATP binding site [chemical binding]; other site 283166001671 Q-loop/lid; other site 283166001672 ABC transporter signature motif; other site 283166001673 Walker B; other site 283166001674 D-loop; other site 283166001675 H-loop/switch region; other site 283166001676 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 283166001677 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 283166001678 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 283166001679 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 283166001680 classical (c) SDRs; Region: SDR_c; cd05233 283166001681 NAD(P) binding site [chemical binding]; other site 283166001682 active site 283166001683 amidophosphoribosyltransferase; Provisional; Region: PRK09123 283166001684 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 283166001685 active site 283166001686 tetramer interface [polypeptide binding]; other site 283166001687 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 283166001688 active site 283166001689 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 283166001690 Colicin V production protein; Region: Colicin_V; pfam02674 283166001691 DNA repair protein RadA; Provisional; Region: PRK11823 283166001692 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 283166001693 Walker A motif/ATP binding site; other site 283166001694 ATP binding site [chemical binding]; other site 283166001695 Walker B motif; other site 283166001696 replicative DNA helicase; Provisional; Region: PRK09165 283166001697 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 283166001698 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 283166001699 Walker A motif; other site 283166001700 ATP binding site [chemical binding]; other site 283166001701 Walker B motif; other site 283166001702 DNA binding loops [nucleotide binding] 283166001703 Identified by comparison to Bartonella henselae;Prophage integrase 283166001704 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 283166001705 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 283166001706 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 283166001707 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 283166001708 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 283166001709 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 283166001710 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 283166001711 active site 283166001712 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 283166001713 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 283166001714 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 283166001715 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 283166001716 NAD(P) binding site [chemical binding]; other site 283166001717 homotetramer interface [polypeptide binding]; other site 283166001718 homodimer interface [polypeptide binding]; other site 283166001719 active site 283166001720 acyl carrier protein; Provisional; Region: acpP; PRK00982 283166001721 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 283166001722 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 283166001723 dimer interface [polypeptide binding]; other site 283166001724 active site 283166001725 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 283166001726 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 283166001727 dimerization interface [polypeptide binding]; other site 283166001728 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 283166001729 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 283166001730 catalytic site [active] 283166001731 G-X2-G-X-G-K; other site 283166001732 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 283166001733 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 283166001734 S-adenosylmethionine binding site [chemical binding]; other site 283166001735 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 283166001736 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 283166001737 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 283166001738 SurA N-terminal domain; Region: SurA_N; pfam09312 283166001739 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 283166001740 OstA-like protein; Region: OstA; cl00844 283166001741 Organic solvent tolerance protein; Region: OstA_C; pfam04453 283166001742 Predicted permeases [General function prediction only]; Region: COG0795 283166001743 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 283166001744 Predicted permeases [General function prediction only]; Region: COG0795 283166001745 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 283166001746 DNA polymerase III subunit chi; Validated; Region: PRK05728 283166001747 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 283166001748 metabolite-proton symporter; Region: 2A0106; TIGR00883 283166001749 putative substrate translocation pore; other site 283166001750 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 283166001751 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 283166001752 Autotransporter beta-domain; Region: Autotransporter; smart00869 283166001753 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 283166001754 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 283166001755 Autotransporter beta-domain; Region: Autotransporter; smart00869 283166001756 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 283166001757 Autotransporter beta-domain; Region: Autotransporter; smart00869 283166001758 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 283166001759 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283166001760 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283166001761 ABC transporter; Region: ABC_tran_2; pfam12848 283166001762 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283166001763 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 283166001764 active site 283166001765 multimer interface [polypeptide binding]; other site 283166001766 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 283166001767 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 283166001768 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 283166001769 GIY-YIG motif/motif A; other site 283166001770 active site 283166001771 catalytic site [active] 283166001772 putative DNA binding site [nucleotide binding]; other site 283166001773 metal binding site [ion binding]; metal-binding site 283166001774 UvrB/uvrC motif; Region: UVR; pfam02151 283166001775 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 283166001776 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 283166001777 Identified by comparison to Agrobacterium tumefaciens;probable sugar hydrolase 283166001778 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 283166001779 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 283166001780 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 283166001781 seryl-tRNA synthetase; Provisional; Region: PRK05431 283166001782 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 283166001783 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 283166001784 dimer interface [polypeptide binding]; other site 283166001785 active site 283166001786 motif 1; other site 283166001787 motif 2; other site 283166001788 motif 3; other site 283166001789 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 283166001790 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 283166001791 S-adenosylmethionine binding site [chemical binding]; other site 283166001792 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 283166001793 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 283166001794 Peptidase family M23; Region: Peptidase_M23; pfam01551 283166001795 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 283166001796 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 283166001797 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 283166001798 substrate binding pocket [chemical binding]; other site 283166001799 substrate-Mg2+ binding site; other site 283166001800 aspartate-rich region 2; other site 283166001801 SurA N-terminal domain; Region: SurA_N_3; cl07813 283166001802 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 283166001803 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 283166001804 triosephosphate isomerase; Provisional; Region: PRK14565 283166001805 substrate binding site [chemical binding]; other site 283166001806 dimer interface [polypeptide binding]; other site 283166001807 catalytic triad [active] 283166001808 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 283166001809 CTP synthetase; Validated; Region: pyrG; PRK05380 283166001810 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 283166001811 Catalytic site [active] 283166001812 active site 283166001813 UTP binding site [chemical binding]; other site 283166001814 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 283166001815 active site 283166001816 putative oxyanion hole; other site 283166001817 catalytic triad [active] 283166001818 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 283166001819 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 283166001820 enolase; Provisional; Region: eno; PRK00077 283166001821 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 283166001822 dimer interface [polypeptide binding]; other site 283166001823 metal binding site [ion binding]; metal-binding site 283166001824 substrate binding pocket [chemical binding]; other site 283166001825 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 283166001826 RNA binding site [nucleotide binding]; other site 283166001827 TM2 domain; Region: TM2; pfam05154 283166001828 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 283166001829 Septum formation initiator; Region: DivIC; pfam04977 283166001830 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 283166001831 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 283166001832 tetramer interface [polypeptide binding]; other site 283166001833 TPP-binding site [chemical binding]; other site 283166001834 heterodimer interface [polypeptide binding]; other site 283166001835 phosphorylation loop region [posttranslational modification] 283166001836 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 283166001837 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 283166001838 E3 interaction surface; other site 283166001839 lipoyl attachment site [posttranslational modification]; other site 283166001840 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 283166001841 alpha subunit interface [polypeptide binding]; other site 283166001842 TPP binding site [chemical binding]; other site 283166001843 heterodimer interface [polypeptide binding]; other site 283166001844 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 283166001845 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 283166001846 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 283166001847 E3 interaction surface; other site 283166001848 lipoyl attachment site [posttranslational modification]; other site 283166001849 e3 binding domain; Region: E3_binding; pfam02817 283166001850 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 283166001851 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 283166001852 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 283166001853 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 283166001854 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 283166001855 lipoyl synthase; Provisional; Region: PRK05481 283166001856 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 283166001857 FeS/SAM binding site; other site 283166001858 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 283166001859 putative coenzyme Q binding site [chemical binding]; other site 283166001860 Competence-damaged protein; Region: CinA; pfam02464 283166001861 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 283166001862 substrate binding site; other site 283166001863 dimer interface; other site 283166001864 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 283166001865 homotrimer interaction site [polypeptide binding]; other site 283166001866 zinc binding site [ion binding]; other site 283166001867 CDP-binding sites; other site 283166001868 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 283166001869 Predicted transcriptional regulator [Transcription]; Region: COG1959 283166001870 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 283166001871 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 283166001872 dimerization interface [polypeptide binding]; other site 283166001873 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 283166001874 dimer interface [polypeptide binding]; other site 283166001875 phosphorylation site [posttranslational modification] 283166001876 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 283166001877 ATP binding site [chemical binding]; other site 283166001878 Mg2+ binding site [ion binding]; other site 283166001879 G-X-G motif; other site 283166001880 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 283166001881 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 283166001882 active site 283166001883 phosphorylation site [posttranslational modification] 283166001884 intermolecular recognition site; other site 283166001885 dimerization interface [polypeptide binding]; other site 283166001886 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 283166001887 Walker A motif; other site 283166001888 ATP binding site [chemical binding]; other site 283166001889 Walker B motif; other site 283166001890 arginine finger; other site 283166001891 MG032/MG096/MG288 family 2; Region: DUF240; pfam03086 283166001892 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 283166001893 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 283166001894 TrkA-N domain; Region: TrkA_N; pfam02254 283166001895 TrkA-C domain; Region: TrkA_C; pfam02080 283166001896 TrkA-N domain; Region: TrkA_N; pfam02254 283166001897 TrkA-C domain; Region: TrkA_C; pfam02080 283166001898 Identified by comparison to Agrobacterium tumefaciens;hypothetical protein 283166001899 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 283166001900 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 283166001901 oligomer interface [polypeptide binding]; other site 283166001902 active site residues [active] 283166001903 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 283166001904 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 283166001905 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 283166001906 Walker A motif; other site 283166001907 ATP binding site [chemical binding]; other site 283166001908 Walker B motif; other site 283166001909 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 283166001910 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 283166001911 Found in ATP-dependent protease La (LON); Region: LON; smart00464 283166001912 Found in ATP-dependent protease La (LON); Region: LON; smart00464 283166001913 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 283166001914 Walker A motif; other site 283166001915 ATP binding site [chemical binding]; other site 283166001916 Walker B motif; other site 283166001917 arginine finger; other site 283166001918 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 283166001919 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 283166001920 IHF dimer interface [polypeptide binding]; other site 283166001921 IHF - DNA interface [nucleotide binding]; other site 283166001922 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 283166001923 Glucose inhibited division protein A; Region: GIDA; pfam01134 283166001924 trigger factor; Provisional; Region: tig; PRK01490 283166001925 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 283166001926 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 283166001927 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 283166001928 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 283166001929 GatB domain; Region: GatB_Yqey; smart00845 283166001930 NADH dehydrogenase; Validated; Region: PRK08183 283166001931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 283166001932 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 283166001933 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 283166001934 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 283166001935 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 283166001936 elongation factor Tu; Reviewed; Region: PRK00049 283166001937 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 283166001938 G1 box; other site 283166001939 GEF interaction site [polypeptide binding]; other site 283166001940 GTP/Mg2+ binding site [chemical binding]; other site 283166001941 Switch I region; other site 283166001942 G2 box; other site 283166001943 G3 box; other site 283166001944 Switch II region; other site 283166001945 G4 box; other site 283166001946 G5 box; other site 283166001947 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 283166001948 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 283166001949 Antibiotic Binding Site [chemical binding]; other site 283166001950 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 283166001951 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 283166001952 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 283166001953 putative homodimer interface [polypeptide binding]; other site 283166001954 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 283166001955 heterodimer interface [polypeptide binding]; other site 283166001956 homodimer interface [polypeptide binding]; other site 283166001957 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 283166001958 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 283166001959 23S rRNA interface [nucleotide binding]; other site 283166001960 L7/L12 interface [polypeptide binding]; other site 283166001961 putative thiostrepton binding site; other site 283166001962 L25 interface [polypeptide binding]; other site 283166001963 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 283166001964 mRNA/rRNA interface [nucleotide binding]; other site 283166001965 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 283166001966 23S rRNA interface [nucleotide binding]; other site 283166001967 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 283166001968 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 283166001969 L11 interface [polypeptide binding]; other site 283166001970 putative EF-Tu interaction site [polypeptide binding]; other site 283166001971 putative EF-G interaction site [polypeptide binding]; other site 283166001972 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 283166001973 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 283166001974 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 283166001975 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 283166001976 RPB11 interaction site [polypeptide binding]; other site 283166001977 RPB12 interaction site [polypeptide binding]; other site 283166001978 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 283166001979 RPB1 interaction site [polypeptide binding]; other site 283166001980 RPB11 interaction site [polypeptide binding]; other site 283166001981 RPB10 interaction site [polypeptide binding]; other site 283166001982 RPB3 interaction site [polypeptide binding]; other site 283166001983 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 283166001984 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 283166001985 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 283166001986 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 283166001987 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 283166001988 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 283166001989 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 283166001990 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 283166001991 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 283166001992 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 283166001993 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 283166001994 DNA binding site [nucleotide binding] 283166001995 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 283166001996 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 283166001997 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 283166001998 DNA binding residues [nucleotide binding] 283166001999 putative dimer interface [polypeptide binding]; other site 283166002000 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 283166002001 putative FMN binding site [chemical binding]; other site 283166002002 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 283166002003 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 283166002004 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 283166002005 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 283166002006 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 283166002007 Sporulation related domain; Region: SPOR; pfam05036 283166002008 Uncharacterized conserved protein [Function unknown]; Region: COG2127 283166002009 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 283166002010 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 283166002011 Walker A motif; other site 283166002012 ATP binding site [chemical binding]; other site 283166002013 Walker B motif; other site 283166002014 arginine finger; other site 283166002015 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 283166002016 Walker A motif; other site 283166002017 ATP binding site [chemical binding]; other site 283166002018 Walker B motif; other site 283166002019 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 283166002020 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 283166002021 HIT family signature motif; other site 283166002022 catalytic residue [active] 283166002023 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 283166002024 homotrimer interaction site [polypeptide binding]; other site 283166002025 putative active site [active] 283166002026 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 283166002027 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 283166002028 rRNA interaction site [nucleotide binding]; other site 283166002029 S8 interaction site; other site 283166002030 putative laminin-1 binding site; other site 283166002031 elongation factor Ts; Provisional; Region: tsf; PRK09377 283166002032 UBA/TS-N domain; Region: UBA; pfam00627 283166002033 Elongation factor TS; Region: EF_TS; pfam00889 283166002034 Elongation factor TS; Region: EF_TS; pfam00889 283166002035 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 283166002036 putative nucleotide binding site [chemical binding]; other site 283166002037 uridine monophosphate binding site [chemical binding]; other site 283166002038 homohexameric interface [polypeptide binding]; other site 283166002039 ribosome recycling factor; Reviewed; Region: frr; PRK00083 283166002040 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 283166002041 hinge region; other site 283166002042 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 283166002043 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 283166002044 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 283166002045 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 283166002046 active site 283166002047 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 283166002048 protein binding site [polypeptide binding]; other site 283166002049 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 283166002050 putative substrate binding region [chemical binding]; other site 283166002051 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 283166002052 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 283166002053 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 283166002054 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 283166002055 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 283166002056 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 283166002057 Surface antigen; Region: Bac_surface_Ag; pfam01103 283166002058 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 283166002059 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 283166002060 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 283166002061 trimer interface [polypeptide binding]; other site 283166002062 active site 283166002063 UDP-GlcNAc binding site [chemical binding]; other site 283166002064 lipid binding site [chemical binding]; lipid-binding site 283166002065 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 283166002066 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 283166002067 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 283166002068 active site 283166002069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 283166002070 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 283166002071 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 283166002072 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 283166002073 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 283166002074 Walker A/P-loop; other site 283166002075 ATP binding site [chemical binding]; other site 283166002076 Q-loop/lid; other site 283166002077 ABC transporter signature motif; other site 283166002078 Walker B; other site 283166002079 D-loop; other site 283166002080 H-loop/switch region; other site 283166002081 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 283166002082 dimer interface [polypeptide binding]; other site 283166002083 conserved gate region; other site 283166002084 putative PBP binding loops; other site 283166002085 ABC-ATPase subunit interface; other site 283166002086 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 283166002087 dimer interface [polypeptide binding]; other site 283166002088 conserved gate region; other site 283166002089 putative PBP binding loops; other site 283166002090 ABC-ATPase subunit interface; other site 283166002091 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 283166002092 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 283166002093 substrate binding pocket [chemical binding]; other site 283166002094 membrane-bound complex binding site; other site 283166002095 hinge residues; other site 283166002096 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 283166002097 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 283166002098 dimer interface [polypeptide binding]; other site 283166002099 active site 283166002100 citrylCoA binding site [chemical binding]; other site 283166002101 NADH binding [chemical binding]; other site 283166002102 cationic pore residues; other site 283166002103 oxalacetate/citrate binding site [chemical binding]; other site 283166002104 coenzyme A binding site [chemical binding]; other site 283166002105 catalytic triad [active] 283166002106 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 283166002107 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 283166002108 active site 283166002109 HIGH motif; other site 283166002110 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 283166002111 active site 283166002112 KMSKS motif; other site 283166002113 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 283166002114 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 283166002115 Competence protein; Region: Competence; pfam03772 283166002116 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 283166002117 tetramer (dimer of dimers) interface [polypeptide binding]; other site 283166002118 active site 283166002119 dimer interface [polypeptide binding]; other site 283166002120 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 283166002121 glutathione reductase; Validated; Region: PRK06116 283166002122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 283166002123 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 283166002124 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 283166002125 NAD synthetase; Provisional; Region: PRK13981 283166002126 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 283166002127 multimer interface [polypeptide binding]; other site 283166002128 active site 283166002129 catalytic triad [active] 283166002130 protein interface 1 [polypeptide binding]; other site 283166002131 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 283166002132 homodimer interface [polypeptide binding]; other site 283166002133 NAD binding pocket [chemical binding]; other site 283166002134 ATP binding pocket [chemical binding]; other site 283166002135 Mg binding site [ion binding]; other site 283166002136 active-site loop [active] 283166002137 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 283166002138 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 283166002139 active site 283166002140 HIGH motif; other site 283166002141 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 283166002142 active site 283166002143 KMSKS motif; other site 283166002144 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 283166002145 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 283166002146 ATP binding site [chemical binding]; other site 283166002147 Mg++ binding site [ion binding]; other site 283166002148 motif III; other site 283166002149 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 283166002150 nucleotide binding region [chemical binding]; other site 283166002151 ATP-binding site [chemical binding]; other site 283166002152 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 283166002153 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 283166002154 active sites [active] 283166002155 tetramer interface [polypeptide binding]; other site 283166002156 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 283166002157 Identified by comparison to Bartonella henselae;Prophage integrase 283166002158 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 283166002159 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 283166002160 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 283166002161 haemagglutination activity domain; Region: Haemagg_act; pfam05860 283166002162 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 283166002163 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002164 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002165 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002166 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002167 Identified by comparison to Bartonella henselae 283166002168 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 283166002169 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 283166002170 Autotransporter beta-domain; Region: Autotransporter; smart00869 283166002171 RTX toxin acyltransferase family; Region: HlyC; cl01131 283166002172 Identified by comparison to Bartonella henselae 283166002173 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 283166002174 non-specific DNA binding site [nucleotide binding]; other site 283166002175 salt bridge; other site 283166002176 sequence-specific DNA binding site [nucleotide binding]; other site 283166002177 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 283166002178 Phage terminase large subunit; Region: Terminase_3; cl12054 283166002179 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 283166002180 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 283166002181 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 283166002182 haemagglutination activity domain; Region: Haemagg_act; pfam05860 283166002183 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 283166002184 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002185 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002186 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002187 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002188 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002189 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002190 Identified by comparison to Bartonella henselae;dnaB 283166002191 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 283166002192 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 283166002193 non-specific DNA binding site [nucleotide binding]; other site 283166002194 salt bridge; other site 283166002195 sequence-specific DNA binding site [nucleotide binding]; other site 283166002196 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 283166002197 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 283166002198 active site 283166002199 catalytic residues [active] 283166002200 DNA binding site [nucleotide binding] 283166002201 Int/Topo IB signature motif; other site 283166002202 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 283166002203 ERF superfamily; Region: ERF; pfam04404 283166002204 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 283166002205 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 283166002206 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 283166002207 AntA/AntB antirepressor; Region: AntA; pfam08346 283166002208 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 283166002209 non-specific DNA binding site [nucleotide binding]; other site 283166002210 salt bridge; other site 283166002211 sequence-specific DNA binding site [nucleotide binding]; other site 283166002212 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 283166002213 active site 283166002214 paiB/phage-related;Identified by comparison to Bartonella henselae 283166002215 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 283166002216 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 283166002217 Predicted transcriptional regulator [Transcription]; Region: COG3905 283166002218 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 283166002219 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 283166002220 dimer interface [polypeptide binding]; other site 283166002221 ssDNA binding site [nucleotide binding]; other site 283166002222 tetramer (dimer of dimers) interface [polypeptide binding]; other site 283166002223 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 283166002224 PemK-like protein; Region: PemK; pfam02452 283166002225 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 283166002226 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 283166002227 Phage terminase large subunit; Region: Terminase_3; cl12054 283166002228 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 283166002229 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 283166002230 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 283166002231 haemagglutination activity domain; Region: Haemagg_act; pfam05860 283166002232 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 283166002233 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002234 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002235 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002236 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002237 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002238 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 283166002239 Identified by comparison to Bartonella henselae;dnaB 283166002240 Response regulator receiver domain; Region: Response_reg; pfam00072 283166002241 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 283166002242 active site 283166002243 phosphorylation site [posttranslational modification] 283166002244 intermolecular recognition site; other site 283166002245 dimerization interface [polypeptide binding]; other site 283166002246 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 283166002247 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 283166002248 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 283166002249 putative dimer interface [polypeptide binding]; other site 283166002250 Identified by comparison to Bartonella henselae 283166002251 Identified by comparison to Bartonella henselae 283166002252 Identified by comparison to Klebsiella;replication initiator protein 283166002253 conserved hypothetical;Identified by comparison to Bartonella henselae 283166002254 Identified by comparison to Neisseria meningitidis;isomerase 283166002255 Identified by comparison to Vibrio cholerae;d-lactate dehydrogenase 283166002256 Identified by comparison to Bartonella quintana 283166002257 Identified by comparison to Bacteriophage phiE125;gp27 283166002258 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 283166002259 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 283166002260 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 283166002261 homodimer interface [polypeptide binding]; other site 283166002262 metal binding site [ion binding]; metal-binding site 283166002263 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 283166002264 homodimer interface [polypeptide binding]; other site 283166002265 active site 283166002266 putative chemical substrate binding site [chemical binding]; other site 283166002267 metal binding site [ion binding]; metal-binding site 283166002268 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 283166002269 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 283166002270 putative acyl-acceptor binding pocket; other site 283166002271 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 283166002272 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 283166002273 NAD(P) binding site [chemical binding]; other site 283166002274 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 283166002275 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 283166002276 dimer interface [polypeptide binding]; other site 283166002277 active site 283166002278 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 283166002279 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 283166002280 active site 283166002281 acyl carrier protein; Provisional; Region: PRK06508 283166002282 malic enzyme; Reviewed; Region: PRK12862 283166002283 Malic enzyme, N-terminal domain; Region: malic; pfam00390 283166002284 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 283166002285 putative NAD(P) binding site [chemical binding]; other site 283166002286 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 283166002287 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 283166002288 Predicted membrane protein [Function unknown]; Region: COG1511 283166002289 bacterial Hfq-like; Region: Hfq; cd01716 283166002290 hexamer interface [polypeptide binding]; other site 283166002291 Sm1 motif; other site 283166002292 RNA binding site [nucleotide binding]; other site 283166002293 Sm2 motif; other site 283166002294 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 283166002295 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 283166002296 HflX GTPase family; Region: HflX; cd01878 283166002297 G1 box; other site 283166002298 GTP/Mg2+ binding site [chemical binding]; other site 283166002299 Switch I region; other site 283166002300 G2 box; other site 283166002301 G3 box; other site 283166002302 Switch II region; other site 283166002303 G4 box; other site 283166002304 G5 box; other site 283166002305 AAA domain; Region: AAA_31; pfam13614 283166002306 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 283166002307 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 283166002308 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 283166002309 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 283166002310 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 283166002311 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 283166002312 dimer interface [polypeptide binding]; other site 283166002313 active site 283166002314 glycine-pyridoxal phosphate binding site [chemical binding]; other site 283166002315 folate binding site [chemical binding]; other site 283166002316 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 283166002317 ATP cone domain; Region: ATP-cone; pfam03477 283166002318 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 283166002319 catalytic motif [active] 283166002320 Zn binding site [ion binding]; other site 283166002321 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 283166002322 RibD C-terminal domain; Region: RibD_C; cl17279 283166002323 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 283166002324 Lumazine binding domain; Region: Lum_binding; pfam00677 283166002325 Lumazine binding domain; Region: Lum_binding; pfam00677 283166002326 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 283166002327 homopentamer interface [polypeptide binding]; other site 283166002328 active site 283166002329 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 283166002330 putative RNA binding site [nucleotide binding]; other site 283166002331 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 283166002332 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 283166002333 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 283166002334 putative phosphate acyltransferase; Provisional; Region: PRK05331 283166002335 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 283166002336 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 283166002337 dimer interface [polypeptide binding]; other site 283166002338 active site 283166002339 CoA binding pocket [chemical binding]; other site 283166002340 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 283166002341 IHF dimer interface [polypeptide binding]; other site 283166002342 IHF - DNA interface [nucleotide binding]; other site 283166002343 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 283166002344 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 283166002345 DNA binding residues [nucleotide binding] 283166002346 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 283166002347 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 283166002348 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 283166002349 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 283166002350 active site 283166002351 dimer interface [polypeptide binding]; other site 283166002352 motif 1; other site 283166002353 motif 2; other site 283166002354 motif 3; other site 283166002355 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 283166002356 anticodon binding site; other site 283166002357 hypothetical protein; Validated; Region: PRK00041 283166002358 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 283166002359 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 283166002360 trimerization site [polypeptide binding]; other site 283166002361 active site 283166002362 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 283166002363 GTP cyclohydrolase I; Provisional; Region: PLN03044 283166002364 active site 283166002365 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 283166002366 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 283166002367 non-specific DNA binding site [nucleotide binding]; other site 283166002368 salt bridge; other site 283166002369 sequence-specific DNA binding site [nucleotide binding]; other site 283166002370 Uncharacterized conserved protein [Function unknown]; Region: COG2433 283166002371 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 283166002372 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 283166002373 active site 283166002374 phosphorylation site [posttranslational modification] 283166002375 intermolecular recognition site; other site 283166002376 dimerization interface [polypeptide binding]; other site 283166002377 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 283166002378 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 283166002379 23S rRNA interface [nucleotide binding]; other site 283166002380 L3 interface [polypeptide binding]; other site 283166002381 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 283166002382 DHH family; Region: DHH; pfam01368 283166002383 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 283166002384 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 283166002385 ATP binding site [chemical binding]; other site 283166002386 Mg2+ binding site [ion binding]; other site 283166002387 G-X-G motif; other site 283166002388 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 283166002389 anchoring element; other site 283166002390 dimer interface [polypeptide binding]; other site 283166002391 ATP binding site [chemical binding]; other site 283166002392 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 283166002393 active site 283166002394 metal binding site [ion binding]; metal-binding site 283166002395 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 283166002396 lipoate-protein ligase B; Provisional; Region: PRK14341 283166002397 Repair protein; Region: Repair_PSII; pfam04536 283166002398 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 283166002399 Identified by comparison to Bartonella quintana;phage related tail protein 283166002400 Phage tail tube protein FII; Region: Phage_tube; cl01390 283166002401 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 283166002402 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 283166002403 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 283166002404 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 283166002405 haemagglutination activity domain; Region: Haemagg_act; pfam05860 283166002406 Identified by comparison to Escherichia coli;hypothetical protein 283166002407 Identified by comparison to Bartonella henselae 283166002408 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 283166002409 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 283166002410 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 283166002411 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 283166002412 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 283166002413 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 283166002414 carboxyltransferase (CT) interaction site; other site 283166002415 biotinylation site [posttranslational modification]; other site 283166002416 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 283166002417 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 283166002418 catalytic residues [active] 283166002419 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 283166002420 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 283166002421 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 283166002422 FMN binding site [chemical binding]; other site 283166002423 active site 283166002424 catalytic residues [active] 283166002425 substrate binding site [chemical binding]; other site 283166002426 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 283166002427 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 283166002428 putative dimer interface [polypeptide binding]; other site 283166002429 active site pocket [active] 283166002430 putative cataytic base [active] 283166002431 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 283166002432 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 283166002433 putative DNA binding site [nucleotide binding]; other site 283166002434 putative Zn2+ binding site [ion binding]; other site 283166002435 AsnC family; Region: AsnC_trans_reg; pfam01037 283166002436 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 283166002437 putative uracil binding site [chemical binding]; other site 283166002438 putative active site [active] 283166002439 Staphylococcal nuclease homologues; Region: SNc; smart00318 283166002440 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 283166002441 Catalytic site; other site 283166002442 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 283166002443 ribonuclease R; Region: RNase_R; TIGR02063 283166002444 RNB domain; Region: RNB; pfam00773 283166002445 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 283166002446 RNA binding site [nucleotide binding]; other site 283166002447 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 283166002448 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 283166002449 active site 283166002450 interdomain interaction site; other site 283166002451 putative metal-binding site [ion binding]; other site 283166002452 nucleotide binding site [chemical binding]; other site 283166002453 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 283166002454 domain I; other site 283166002455 DNA binding groove [nucleotide binding] 283166002456 phosphate binding site [ion binding]; other site 283166002457 domain II; other site 283166002458 domain III; other site 283166002459 nucleotide binding site [chemical binding]; other site 283166002460 catalytic site [active] 283166002461 domain IV; other site 283166002462 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 283166002463 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 283166002464 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 283166002465 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 283166002466 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 283166002467 DNA protecting protein DprA; Region: dprA; TIGR00732 283166002468 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 283166002469 dihydroorotase; Validated; Region: PRK09059 283166002470 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 283166002471 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 283166002472 active site 283166002473 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 283166002474 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 283166002475 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 283166002476 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 283166002477 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 283166002478 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 283166002479 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 283166002480 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 283166002481 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 283166002482 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 283166002483 Walker A/P-loop; other site 283166002484 ATP binding site [chemical binding]; other site 283166002485 Q-loop/lid; other site 283166002486 ABC transporter signature motif; other site 283166002487 Walker B; other site 283166002488 D-loop; other site 283166002489 H-loop/switch region; other site 283166002490 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 283166002491 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 283166002492 Walker A/P-loop; other site 283166002493 ATP binding site [chemical binding]; other site 283166002494 Q-loop/lid; other site 283166002495 ABC transporter signature motif; other site 283166002496 Walker B; other site 283166002497 D-loop; other site 283166002498 H-loop/switch region; other site 283166002499 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 283166002500 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 283166002501 TM-ABC transporter signature motif; other site 283166002502 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 283166002503 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 283166002504 TM-ABC transporter signature motif; other site 283166002505 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 283166002506 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 283166002507 putative ligand binding site [chemical binding]; other site 283166002508 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 283166002509 DNA-binding site [nucleotide binding]; DNA binding site 283166002510 RNA-binding motif; other site 283166002511 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 283166002512 DNA-binding site [nucleotide binding]; DNA binding site 283166002513 RNA-binding motif; other site 283166002514 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 283166002515 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 283166002516 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 283166002517 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 283166002518 hypothetical protein; Reviewed; Region: PRK00024 283166002519 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 283166002520 MPN+ (JAMM) motif; other site 283166002521 Zinc-binding site [ion binding]; other site 283166002522 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 283166002523 active site 283166002524 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 283166002525 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 283166002526 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 283166002527 glutamate racemase; Provisional; Region: PRK00865 283166002528 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 283166002529 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 283166002530 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 283166002531 RNA binding surface [nucleotide binding]; other site 283166002532 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 283166002533 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 283166002534 Ligand Binding Site [chemical binding]; other site 283166002535 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 283166002536 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 283166002537 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 283166002538 FeS/SAM binding site; other site 283166002539 LexA repressor; Validated; Region: PRK00215 283166002540 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 283166002541 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 283166002542 Catalytic site [active] 283166002543 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 283166002544 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 283166002545 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 283166002546 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 283166002547 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 283166002548 thymidylate kinase; Validated; Region: tmk; PRK00698 283166002549 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 283166002550 TMP-binding site; other site 283166002551 ATP-binding site [chemical binding]; other site 283166002552 DNA polymerase III subunit delta'; Validated; Region: PRK09112 283166002553 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 283166002554 Walker A motif; other site 283166002555 ATP binding site [chemical binding]; other site 283166002556 Walker B motif; other site 283166002557 arginine finger; other site 283166002558 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 283166002559 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 283166002560 active site 283166002561 HIGH motif; other site 283166002562 KMSKS motif; other site 283166002563 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 283166002564 tRNA binding surface [nucleotide binding]; other site 283166002565 anticodon binding site; other site 283166002566 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 283166002567 active site 283166002568 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 283166002569 putative hydrolase; Provisional; Region: PRK02113 283166002570 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 283166002571 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 283166002572 substrate binding site [chemical binding]; other site 283166002573 oxyanion hole (OAH) forming residues; other site 283166002574 trimer interface [polypeptide binding]; other site 283166002575 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 283166002576 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 283166002577 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 283166002578 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 283166002579 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 283166002580 Identified by comparison to Sinorhizobium meliloti;hypothetical protein 283166002581 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 283166002582 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 283166002583 E-class dimer interface [polypeptide binding]; other site 283166002584 P-class dimer interface [polypeptide binding]; other site 283166002585 active site 283166002586 Cu2+ binding site [ion binding]; other site 283166002587 Zn2+ binding site [ion binding]; other site 283166002588 Protein of unknown function (DUF511); Region: DUF511; cl01114 283166002589 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 283166002590 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 283166002591 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 283166002592 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283166002593 catalytic residue [active] 283166002594 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 283166002595 FeS assembly protein SufD; Region: sufD; TIGR01981 283166002596 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 283166002597 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 283166002598 Walker A/P-loop; other site 283166002599 ATP binding site [chemical binding]; other site 283166002600 Q-loop/lid; other site 283166002601 ABC transporter signature motif; other site 283166002602 Walker B; other site 283166002603 D-loop; other site 283166002604 H-loop/switch region; other site 283166002605 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 283166002606 putative ABC transporter; Region: ycf24; CHL00085 283166002607 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 283166002608 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 283166002609 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283166002610 catalytic residue [active] 283166002611 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 283166002612 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283166002613 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 283166002614 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 283166002615 active site 283166002616 HIGH motif; other site 283166002617 dimer interface [polypeptide binding]; other site 283166002618 KMSKS motif; other site 283166002619 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 283166002620 RNA binding surface [nucleotide binding]; other site 283166002621 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 283166002622 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 283166002623 catalytic triad [active] 283166002624 peptide chain release factor 2; Provisional; Region: PRK07342 283166002625 This domain is found in peptide chain release factors; Region: PCRF; smart00937 283166002626 RF-1 domain; Region: RF-1; pfam00472 283166002627 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 283166002628 Transglycosylase; Region: Transgly; pfam00912 283166002629 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 283166002630 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 283166002631 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 283166002632 active site 283166002633 metal binding site [ion binding]; metal-binding site 283166002634 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 283166002635 RNA binding site [nucleotide binding]; other site 283166002636 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 283166002637 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 283166002638 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 283166002639 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 283166002640 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 283166002641 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 283166002642 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 283166002643 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 283166002644 ATP binding site [chemical binding]; other site 283166002645 putative Mg++ binding site [ion binding]; other site 283166002646 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 283166002647 nucleotide binding region [chemical binding]; other site 283166002648 ATP-binding site [chemical binding]; other site 283166002649 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 283166002650 Uncharacterized conserved protein [Function unknown]; Region: COG2938 283166002651 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 283166002652 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 283166002653 Walker A/P-loop; other site 283166002654 ATP binding site [chemical binding]; other site 283166002655 Q-loop/lid; other site 283166002656 ABC transporter signature motif; other site 283166002657 Walker B; other site 283166002658 D-loop; other site 283166002659 H-loop/switch region; other site 283166002660 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 283166002661 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 283166002662 FtsX-like permease family; Region: FtsX; pfam02687 283166002663 prolyl-tRNA synthetase; Provisional; Region: PRK12325 283166002664 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 283166002665 dimer interface [polypeptide binding]; other site 283166002666 motif 1; other site 283166002667 active site 283166002668 motif 2; other site 283166002669 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 283166002670 active site 283166002671 motif 3; other site 283166002672 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 283166002673 anticodon binding site; other site 283166002674 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 283166002675 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 283166002676 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 283166002677 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 283166002678 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 283166002679 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 283166002680 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 283166002681 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 283166002682 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 283166002683 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 283166002684 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 283166002685 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 283166002686 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 283166002687 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 283166002688 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 283166002689 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 283166002690 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 283166002691 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 283166002692 4Fe-4S binding domain; Region: Fer4; pfam00037 283166002693 4Fe-4S binding domain; Region: Fer4; pfam00037 283166002694 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 283166002695 NADH dehydrogenase subunit G; Validated; Region: PRK09130 283166002696 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 283166002697 catalytic loop [active] 283166002698 iron binding site [ion binding]; other site 283166002699 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 283166002700 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 283166002701 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 283166002702 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 283166002703 SLBB domain; Region: SLBB; pfam10531 283166002704 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 283166002705 NADH dehydrogenase subunit E; Validated; Region: PRK07539 283166002706 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 283166002707 putative dimer interface [polypeptide binding]; other site 283166002708 [2Fe-2S] cluster binding site [ion binding]; other site 283166002709 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 283166002710 NADH dehydrogenase subunit D; Validated; Region: PRK06075 283166002711 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 283166002712 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 283166002713 NADH dehydrogenase subunit B; Validated; Region: PRK06411 283166002714 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 283166002715 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 283166002716 Identified by comparison to Bartonella henselae;Prophage integrase 283166002717 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 283166002718 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 283166002719 active site 283166002720 metal binding site [ion binding]; metal-binding site 283166002721 interdomain interaction site; other site 283166002722 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 283166002723 catalytic residues [active] 283166002724 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 283166002725 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 283166002726 Uncharacterized conserved protein [Function unknown]; Region: COG2433 283166002727 ParB-like nuclease domain; Region: ParB; smart00470 283166002728 Identified by comparison to Bartonella henselae 283166002729 Identified by comparison to Bartonella henselae 283166002730 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 283166002731 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 283166002732 catalytic residues [active] 283166002733 Phage Tail Collar Domain; Region: Collar; pfam07484 283166002734 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 283166002735 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283166002736 catalytic residue [active] 283166002737 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 283166002738 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 283166002739 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 283166002740 Phage terminase large subunit; Region: Terminase_3; cl12054 283166002741 Identified by comparison to Bartonella henselae;plasmid 283166002742 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 283166002743 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 283166002744 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 283166002745 dimer interface [polypeptide binding]; other site 283166002746 ssDNA binding site [nucleotide binding]; other site 283166002747 tetramer (dimer of dimers) interface [polypeptide binding]; other site 283166002748 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 283166002749 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 283166002750 non-specific DNA binding site [nucleotide binding]; other site 283166002751 salt bridge; other site 283166002752 sequence-specific DNA binding site [nucleotide binding]; other site 283166002753 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 283166002754 hypothetical protein; Validated; Region: PRK09087 283166002755 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 283166002756 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 283166002757 Domain of unknown function DUF20; Region: UPF0118; pfam01594 283166002758 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 283166002759 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 283166002760 dimerization interface [polypeptide binding]; other site 283166002761 putative ATP binding site [chemical binding]; other site 283166002762 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 283166002763 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 283166002764 active site 283166002765 substrate binding site [chemical binding]; other site 283166002766 cosubstrate binding site; other site 283166002767 catalytic site [active] 283166002768 Identified by comparison to Bartonella henselae;Prophage integrase 283166002769 Identified by comparison to Bartonella henselae;Prophage integrase 283166002770 Identified by comparison to Bartonella henselae;Prophage integrase 283166002771 Identified by comparison to Bartonella henselae;helicase 283166002772 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 283166002773 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 283166002774 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 283166002775 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 283166002776 putative active site [active] 283166002777 heme pocket [chemical binding]; other site 283166002778 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 283166002779 dimer interface [polypeptide binding]; other site 283166002780 phosphorylation site [posttranslational modification] 283166002781 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 283166002782 ATP binding site [chemical binding]; other site 283166002783 Mg2+ binding site [ion binding]; other site 283166002784 G-X-G motif; other site 283166002785 Response regulator receiver domain; Region: Response_reg; pfam00072 283166002786 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 283166002787 active site 283166002788 phosphorylation site [posttranslational modification] 283166002789 intermolecular recognition site; other site 283166002790 dimerization interface [polypeptide binding]; other site 283166002791 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 283166002792 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 283166002793 Flavin Reductases; Region: FlaRed; cl00801 283166002794 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 283166002795 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 283166002796 substrate binding site [chemical binding]; other site 283166002797 hexamer interface [polypeptide binding]; other site 283166002798 metal binding site [ion binding]; metal-binding site 283166002799 adenylosuccinate lyase; Provisional; Region: PRK07492 283166002800 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 283166002801 tetramer interface [polypeptide binding]; other site 283166002802 active site 283166002803 Serine hydrolase; Region: Ser_hydrolase; pfam06821 283166002804 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 283166002805 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 283166002806 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 283166002807 ATP binding site [chemical binding]; other site 283166002808 active site 283166002809 substrate binding site [chemical binding]; other site 283166002810 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 283166002811 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 283166002812 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 283166002813 putative active site [active] 283166002814 catalytic triad [active] 283166002815 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 283166002816 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 283166002817 dimerization interface [polypeptide binding]; other site 283166002818 ATP binding site [chemical binding]; other site 283166002819 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 283166002820 dimerization interface [polypeptide binding]; other site 283166002821 ATP binding site [chemical binding]; other site 283166002822 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 283166002823 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 283166002824 putative GSH binding site [chemical binding]; other site 283166002825 catalytic residues [active] 283166002826 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 283166002827 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 283166002828 putative substrate translocation pore; other site 283166002829 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 283166002830 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 283166002831 CAP-like domain; other site 283166002832 active site 283166002833 primary dimer interface [polypeptide binding]; other site 283166002834 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283166002835 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 283166002836 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 283166002837 dimer interface [polypeptide binding]; other site 283166002838 anticodon binding site; other site 283166002839 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 283166002840 homodimer interface [polypeptide binding]; other site 283166002841 motif 1; other site 283166002842 active site 283166002843 motif 2; other site 283166002844 GAD domain; Region: GAD; pfam02938 283166002845 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 283166002846 active site 283166002847 motif 3; other site 283166002848 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 283166002849 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 283166002850 catalytic site [active] 283166002851 putative active site [active] 283166002852 putative substrate binding site [chemical binding]; other site 283166002853 HRDC domain; Region: HRDC; pfam00570 283166002854 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 283166002855 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 283166002856 polyphosphate kinase; Provisional; Region: PRK05443 283166002857 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 283166002858 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 283166002859 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 283166002860 putative domain interface [polypeptide binding]; other site 283166002861 putative active site [active] 283166002862 catalytic site [active] 283166002863 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 283166002864 putative domain interface [polypeptide binding]; other site 283166002865 putative active site [active] 283166002866 catalytic site [active] 283166002867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 283166002868 salicylate hydroxylase; Provisional; Region: PRK06475 283166002869 salicylate hydroxylase; Provisional; Region: PRK08163 283166002870 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 283166002871 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 283166002872 putative active site [active] 283166002873 putative PHP Thumb interface [polypeptide binding]; other site 283166002874 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 283166002875 generic binding surface II; other site 283166002876 generic binding surface I; other site 283166002877 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 283166002878 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 283166002879 generic binding surface II; other site 283166002880 ssDNA binding site; other site 283166002881 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 283166002882 ATP binding site [chemical binding]; other site 283166002883 putative Mg++ binding site [ion binding]; other site 283166002884 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 283166002885 nucleotide binding region [chemical binding]; other site 283166002886 ATP-binding site [chemical binding]; other site 283166002887 Identified by comparison to Brucella suis;hypothetical membrane protein 283166002888 Identified by comparison to Bartonella henselae 283166002889 Identified by comparison to Bartonella henselae;vapE 283166002890 Identified by comparison to Bartonella henselae;Prophage integrase 283166002891 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 283166002892 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 283166002893 glutaminase active site [active] 283166002894 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 283166002895 dimer interface [polypeptide binding]; other site 283166002896 active site 283166002897 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 283166002898 dimer interface [polypeptide binding]; other site 283166002899 active site 283166002900 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 283166002901 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 283166002902 Substrate binding site; other site 283166002903 Mg++ binding site; other site 283166002904 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 283166002905 active site 283166002906 substrate binding site [chemical binding]; other site 283166002907 CoA binding site [chemical binding]; other site 283166002908 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 283166002909 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 283166002910 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 283166002911 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 283166002912 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 283166002913 Zn2+ binding site [ion binding]; other site 283166002914 Mg2+ binding site [ion binding]; other site 283166002915 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 283166002916 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 283166002917 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 283166002918 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 283166002919 active site 283166002920 HIGH motif; other site 283166002921 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 283166002922 KMSK motif region; other site 283166002923 tRNA binding surface [nucleotide binding]; other site 283166002924 DALR anticodon binding domain; Region: DALR_1; smart00836 283166002925 anticodon binding site; other site 283166002926 Sporulation related domain; Region: SPOR; pfam05036 283166002927 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 283166002928 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 283166002929 homodimer interface [polypeptide binding]; other site 283166002930 substrate-cofactor binding pocket; other site 283166002931 catalytic residue [active] 283166002932 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 283166002933 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 283166002934 putative active site [active] 283166002935 homoserine dehydrogenase; Provisional; Region: PRK06349 283166002936 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 283166002937 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 283166002938 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 283166002939 isocitrate dehydrogenase; Validated; Region: PRK08299 283166002940 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 283166002941 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 283166002942 putative substrate translocation pore; other site 283166002943 MFS transport protein AraJ; Provisional; Region: PRK10091 283166002944 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 283166002945 putative substrate translocation pore; other site 283166002946 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 283166002947 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 283166002948 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 283166002949 active site 283166002950 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 283166002951 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 283166002952 active site 283166002953 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 283166002954 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 283166002955 active site 283166002956 (T/H)XGH motif; other site 283166002957 DNA gyrase subunit A; Validated; Region: PRK05560 283166002958 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 283166002959 CAP-like domain; other site 283166002960 active site 283166002961 primary dimer interface [polypeptide binding]; other site 283166002962 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283166002963 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283166002964 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283166002965 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283166002966 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283166002967 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 283166002968 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 283166002969 dimer interface [polypeptide binding]; other site 283166002970 ssDNA binding site [nucleotide binding]; other site 283166002971 tetramer (dimer of dimers) interface [polypeptide binding]; other site 283166002972 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 283166002973 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 283166002974 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 283166002975 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 283166002976 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 283166002977 Nitrogen regulatory protein P-II; Region: P-II; smart00938 283166002978 glutamine synthetase; Provisional; Region: glnA; PRK09469 283166002979 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 283166002980 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 283166002981 ATP12 chaperone protein; Region: ATP12; cl02228 283166002982 Identified by comparison to Helicobacter pylori;transposase homolog a 283166002983 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 283166002984 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 283166002985 active site 283166002986 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 283166002987 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 283166002988 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283166002989 Walker A/P-loop; other site 283166002990 ATP binding site [chemical binding]; other site 283166002991 Q-loop/lid; other site 283166002992 ABC transporter signature motif; other site 283166002993 Walker B; other site 283166002994 D-loop; other site 283166002995 H-loop/switch region; other site 283166002996 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 283166002997 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 283166002998 motif 1; other site 283166002999 active site 283166003000 motif 2; other site 283166003001 motif 3; other site 283166003002 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 283166003003 DHHA1 domain; Region: DHHA1; pfam02272 283166003004 recombinase A; Provisional; Region: recA; PRK09354 283166003005 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 283166003006 hexamer interface [polypeptide binding]; other site 283166003007 Walker A motif; other site 283166003008 ATP binding site [chemical binding]; other site 283166003009 Walker B motif; other site 283166003010 recombination factor protein RarA; Reviewed; Region: PRK13342 283166003011 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 283166003012 Walker A motif; other site 283166003013 ATP binding site [chemical binding]; other site 283166003014 Walker B motif; other site 283166003015 arginine finger; other site 283166003016 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 283166003017 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 283166003018 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 283166003019 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 283166003020 protein binding site [polypeptide binding]; other site 283166003021 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 283166003022 protein binding site [polypeptide binding]; other site 283166003023 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 283166003024 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 283166003025 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 283166003026 alphaNTD - beta interaction site [polypeptide binding]; other site 283166003027 alphaNTD homodimer interface [polypeptide binding]; other site 283166003028 alphaNTD - beta' interaction site [polypeptide binding]; other site 283166003029 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 283166003030 30S ribosomal protein S11; Validated; Region: PRK05309 283166003031 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 283166003032 30S ribosomal protein S13; Region: bact_S13; TIGR03631 283166003033 adenylate kinase; Reviewed; Region: adk; PRK00279 283166003034 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 283166003035 AMP-binding site [chemical binding]; other site 283166003036 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 283166003037 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 283166003038 SecY translocase; Region: SecY; pfam00344 283166003039 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 283166003040 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 283166003041 23S rRNA binding site [nucleotide binding]; other site 283166003042 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 283166003043 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 283166003044 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 283166003045 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 283166003046 23S rRNA interface [nucleotide binding]; other site 283166003047 5S rRNA interface [nucleotide binding]; other site 283166003048 L27 interface [polypeptide binding]; other site 283166003049 L5 interface [polypeptide binding]; other site 283166003050 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 283166003051 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 283166003052 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 283166003053 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 283166003054 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 283166003055 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 283166003056 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 283166003057 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 283166003058 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 283166003059 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 283166003060 RNA binding site [nucleotide binding]; other site 283166003061 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 283166003062 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 283166003063 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 283166003064 putative translocon interaction site; other site 283166003065 23S rRNA interface [nucleotide binding]; other site 283166003066 signal recognition particle (SRP54) interaction site; other site 283166003067 L23 interface [polypeptide binding]; other site 283166003068 trigger factor interaction site; other site 283166003069 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 283166003070 23S rRNA interface [nucleotide binding]; other site 283166003071 5S rRNA interface [nucleotide binding]; other site 283166003072 putative antibiotic binding site [chemical binding]; other site 283166003073 L25 interface [polypeptide binding]; other site 283166003074 L27 interface [polypeptide binding]; other site 283166003075 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 283166003076 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 283166003077 G-X-X-G motif; other site 283166003078 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 283166003079 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 283166003080 putative translocon binding site; other site 283166003081 protein-rRNA interface [nucleotide binding]; other site 283166003082 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 283166003083 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 283166003084 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 283166003085 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 283166003086 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 283166003087 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 283166003088 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 283166003089 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 283166003090 elongation factor Tu; Reviewed; Region: PRK00049 283166003091 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 283166003092 G1 box; other site 283166003093 GEF interaction site [polypeptide binding]; other site 283166003094 GTP/Mg2+ binding site [chemical binding]; other site 283166003095 Switch I region; other site 283166003096 G2 box; other site 283166003097 G3 box; other site 283166003098 Switch II region; other site 283166003099 G4 box; other site 283166003100 G5 box; other site 283166003101 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 283166003102 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 283166003103 Antibiotic Binding Site [chemical binding]; other site 283166003104 elongation factor G; Reviewed; Region: PRK00007 283166003105 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 283166003106 G1 box; other site 283166003107 putative GEF interaction site [polypeptide binding]; other site 283166003108 GTP/Mg2+ binding site [chemical binding]; other site 283166003109 Switch I region; other site 283166003110 G2 box; other site 283166003111 G3 box; other site 283166003112 Switch II region; other site 283166003113 G4 box; other site 283166003114 G5 box; other site 283166003115 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 283166003116 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 283166003117 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 283166003118 30S ribosomal protein S7; Validated; Region: PRK05302 283166003119 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 283166003120 S17 interaction site [polypeptide binding]; other site 283166003121 S8 interaction site; other site 283166003122 16S rRNA interaction site [nucleotide binding]; other site 283166003123 streptomycin interaction site [chemical binding]; other site 283166003124 23S rRNA interaction site [nucleotide binding]; other site 283166003125 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 283166003126 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 283166003127 putative catalytic site [active] 283166003128 putative phosphate binding site [ion binding]; other site 283166003129 active site 283166003130 metal binding site A [ion binding]; metal-binding site 283166003131 DNA binding site [nucleotide binding] 283166003132 putative AP binding site [nucleotide binding]; other site 283166003133 putative metal binding site B [ion binding]; other site 283166003134 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 283166003135 substrate binding pocket [chemical binding]; other site 283166003136 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 283166003137 membrane-bound complex binding site; other site 283166003138 hinge residues; other site 283166003139 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 283166003140 dimer interface [polypeptide binding]; other site 283166003141 conserved gate region; other site 283166003142 putative PBP binding loops; other site 283166003143 ABC-ATPase subunit interface; other site 283166003144 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 283166003145 dimer interface [polypeptide binding]; other site 283166003146 conserved gate region; other site 283166003147 putative PBP binding loops; other site 283166003148 ABC-ATPase subunit interface; other site 283166003149 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 283166003150 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 283166003151 Walker A/P-loop; other site 283166003152 ATP binding site [chemical binding]; other site 283166003153 Q-loop/lid; other site 283166003154 ABC transporter signature motif; other site 283166003155 Walker B; other site 283166003156 D-loop; other site 283166003157 H-loop/switch region; other site 283166003158 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 283166003159 Sel1-like repeats; Region: SEL1; smart00671 283166003160 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 283166003161 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 283166003162 HIGH motif; other site 283166003163 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 283166003164 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 283166003165 active site 283166003166 KMSKS motif; other site 283166003167 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 283166003168 tRNA binding surface [nucleotide binding]; other site 283166003169 anticodon binding site; other site 283166003170 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 283166003171 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 283166003172 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 283166003173 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 283166003174 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 283166003175 S-adenosylmethionine binding site [chemical binding]; other site 283166003176 Identified by comparison to Bartonella henselae 283166003177 Identified by comparison to Escherichia coli;hypothetical protein 283166003178 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 283166003179 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 283166003180 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 283166003181 ATP binding site [chemical binding]; other site 283166003182 Mg++ binding site [ion binding]; other site 283166003183 motif III; other site 283166003184 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 283166003185 nucleotide binding region [chemical binding]; other site 283166003186 ATP-binding site [chemical binding]; other site 283166003187 threonine dehydratase; Validated; Region: PRK08639 283166003188 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 283166003189 tetramer interface [polypeptide binding]; other site 283166003190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283166003191 catalytic residue [active] 283166003192 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 283166003193 Identified by comparison to Bartonella quintana;hbpE 283166003194 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 283166003195 Mechanosensitive ion channel; Region: MS_channel; pfam00924 283166003196 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 283166003197 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 283166003198 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 283166003199 Protein export membrane protein; Region: SecD_SecF; pfam02355 283166003200 putative cation:proton antiport protein; Provisional; Region: PRK10669 283166003201 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 283166003202 TrkA-N domain; Region: TrkA_N; pfam02254 283166003203 Predicted integral membrane protein [Function unknown]; Region: COG0392 283166003204 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 283166003205 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 283166003206 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 283166003207 Transporter associated domain; Region: CorC_HlyC; smart01091 283166003208 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 283166003209 ketol-acid reductoisomerase; Provisional; Region: PRK05479 283166003210 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 283166003211 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 283166003212 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 283166003213 active site 283166003214 hydrophilic channel; other site 283166003215 dimerization interface [polypeptide binding]; other site 283166003216 catalytic residues [active] 283166003217 active site lid [active] 283166003218 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 283166003219 AAA domain; Region: AAA_30; pfam13604 283166003220 Family description; Region: UvrD_C_2; pfam13538 283166003221 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 283166003222 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 283166003223 PYR/PP interface [polypeptide binding]; other site 283166003224 dimer interface [polypeptide binding]; other site 283166003225 TPP binding site [chemical binding]; other site 283166003226 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 283166003227 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 283166003228 TPP-binding site [chemical binding]; other site 283166003229 dimer interface [polypeptide binding]; other site 283166003230 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 283166003231 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 283166003232 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 283166003233 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 283166003234 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 283166003235 protein binding site [polypeptide binding]; other site 283166003236 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 283166003237 protein binding site [polypeptide binding]; other site 283166003238 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 283166003239 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 283166003240 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 283166003241 HflK protein; Region: hflK; TIGR01933 283166003242 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 283166003243 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 283166003244 folate binding site [chemical binding]; other site 283166003245 NADP+ binding site [chemical binding]; other site 283166003246 thymidylate synthase; Reviewed; Region: thyA; PRK01827 283166003247 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 283166003248 dimerization interface [polypeptide binding]; other site 283166003249 active site 283166003250 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 283166003251 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 283166003252 putative substrate translocation pore; other site 283166003253 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 283166003254 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 283166003255 putative substrate translocation pore; other site 283166003256 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 283166003257 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 283166003258 putative substrate translocation pore; other site 283166003259 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 283166003260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 283166003261 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 283166003262 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 283166003263 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 283166003264 Part of AAA domain; Region: AAA_19; pfam13245 283166003265 Family description; Region: UvrD_C_2; pfam13538 283166003266 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 283166003267 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 283166003268 trimer interface [polypeptide binding]; other site 283166003269 active site 283166003270 substrate binding site [chemical binding]; other site 283166003271 CoA binding site [chemical binding]; other site 283166003272 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 283166003273 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 283166003274 Cu(I) binding site [ion binding]; other site 283166003275 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 283166003276 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 283166003277 S-adenosylmethionine binding site [chemical binding]; other site 283166003278 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 283166003279 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 283166003280 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 283166003281 active site 283166003282 Identified by comparison to Bartonella henselae;Prophage integrase 283166003283 Identified by comparison to Bartonella henselae;dna-bind 283166003284 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 283166003285 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 283166003286 nucleotide binding pocket [chemical binding]; other site 283166003287 K-X-D-G motif; other site 283166003288 catalytic site [active] 283166003289 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 283166003290 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 283166003291 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 283166003292 Dimer interface [polypeptide binding]; other site 283166003293 BRCT sequence motif; other site 283166003294 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 283166003295 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 283166003296 Walker A/P-loop; other site 283166003297 ATP binding site [chemical binding]; other site 283166003298 Q-loop/lid; other site 283166003299 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 283166003300 ABC transporter signature motif; other site 283166003301 Walker B; other site 283166003302 D-loop; other site 283166003303 H-loop/switch region; other site 283166003304 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 283166003305 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 283166003306 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 283166003307 cell division protein FtsZ; Validated; Region: PRK09330 283166003308 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 283166003309 nucleotide binding site [chemical binding]; other site 283166003310 SulA interaction site; other site 283166003311 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 283166003312 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 283166003313 Cell division protein FtsA; Region: FtsA; smart00842 283166003314 Cell division protein FtsA; Region: FtsA; pfam14450 283166003315 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 283166003316 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 283166003317 Cell division protein FtsQ; Region: FtsQ; pfam03799 283166003318 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 283166003319 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 283166003320 ATP-grasp domain; Region: ATP-grasp_4; cl17255 283166003321 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 283166003322 FAD binding domain; Region: FAD_binding_4; pfam01565 283166003323 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 283166003324 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 283166003325 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 283166003326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 283166003327 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 283166003328 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 283166003329 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 283166003330 active site 283166003331 homodimer interface [polypeptide binding]; other site 283166003332 cell division protein FtsW; Region: ftsW; TIGR02614 283166003333 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 283166003334 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 283166003335 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; cd01983 283166003336 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 283166003337 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 283166003338 Mg++ binding site [ion binding]; other site 283166003339 putative catalytic motif [active] 283166003340 putative substrate binding site [chemical binding]; other site 283166003341 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 283166003342 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 283166003343 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 283166003344 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 283166003345 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 283166003346 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 283166003347 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 283166003348 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 283166003349 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 283166003350 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 283166003351 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 283166003352 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 283166003353 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 283166003354 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 283166003355 S-adenosylmethionine binding site [chemical binding]; other site 283166003356 hypothetical/rnaseP;Identified by comparison to Bartonella henselae 283166003357 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 283166003358 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 283166003359 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283166003360 catalytic residue [active] 283166003361 Methyltransferase domain; Region: Methyltransf_11; pfam08241 283166003362 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 283166003363 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283166003364 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283166003365 ABC transporter; Region: ABC_tran_2; pfam12848 283166003366 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283166003367 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 283166003368 Isochorismatase family; Region: Isochorismatase; pfam00857 283166003369 catalytic triad [active] 283166003370 metal binding site [ion binding]; metal-binding site 283166003371 conserved cis-peptide bond; other site 283166003372 hypothetical protein; Provisional; Region: PRK14013 283166003373 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 283166003374 non-specific DNA binding site [nucleotide binding]; other site 283166003375 salt bridge; other site 283166003376 sequence-specific DNA binding site [nucleotide binding]; other site 283166003377 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 283166003378 Identified by comparison to Bartonella henselae 283166003379 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 283166003380 non-specific DNA binding site [nucleotide binding]; other site 283166003381 salt bridge; other site 283166003382 sequence-specific DNA binding site [nucleotide binding]; other site 283166003383 Identified by comparison to Bartonella henselae 283166003384 Identified by comparison to Bartonella henselae;integrase/recomb 283166003385 Uncharacterized conserved protein [Function unknown]; Region: COG2968 283166003386 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 283166003387 hypothetical protein; Provisional; Region: PRK05170 283166003388 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 283166003389 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 283166003390 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 283166003391 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 283166003392 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283166003393 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 283166003394 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 283166003395 DNA binding residues [nucleotide binding] 283166003396 DNA primase; Validated; Region: dnaG; PRK05667 283166003397 CHC2 zinc finger; Region: zf-CHC2; cl17510 283166003398 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 283166003399 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 283166003400 active site 283166003401 metal binding site [ion binding]; metal-binding site 283166003402 interdomain interaction site; other site 283166003403 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 283166003404 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 283166003405 Mechanosensitive ion channel; Region: MS_channel; pfam00924 283166003406 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 283166003407 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 283166003408 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 283166003409 PhoU domain; Region: PhoU; pfam01895 283166003410 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 283166003411 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 283166003412 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 283166003413 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 283166003414 catalytic site [active] 283166003415 subunit interface [polypeptide binding]; other site 283166003416 Identified by comparison to Bartonella quintana; transport protein 283166003417 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 283166003418 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 283166003419 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 283166003420 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 283166003421 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 283166003422 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 283166003423 ATP-grasp domain; Region: ATP-grasp_4; cl17255 283166003424 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 283166003425 IMP binding site; other site 283166003426 dimer interface [polypeptide binding]; other site 283166003427 interdomain contacts; other site 283166003428 partial ornithine binding site; other site 283166003429 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 283166003430 DNA-binding site [nucleotide binding]; DNA binding site 283166003431 RNA-binding motif; other site 283166003432 aspartate aminotransferase; Provisional; Region: PRK05764 283166003433 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 283166003434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283166003435 homodimer interface [polypeptide binding]; other site 283166003436 catalytic residue [active] 283166003437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283166003438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283166003439 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 283166003440 putative effector binding pocket; other site 283166003441 dimerization interface [polypeptide binding]; other site 283166003442 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 283166003443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 283166003444 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 283166003445 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 283166003446 Identified by comparison to Bartonella henselae;Prophage integrase 283166003447 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 283166003448 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 283166003449 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 283166003450 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 283166003451 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 283166003452 Bacterial SH3 domain; Region: SH3_3; pfam08239 283166003453 excinuclease ABC subunit B; Provisional; Region: PRK05298 283166003454 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 283166003455 ATP binding site [chemical binding]; other site 283166003456 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 283166003457 nucleotide binding region [chemical binding]; other site 283166003458 ATP-binding site [chemical binding]; other site 283166003459 Ultra-violet resistance protein B; Region: UvrB; pfam12344 283166003460 UvrB/uvrC motif; Region: UVR; pfam02151 283166003461 BA14K-like protein; Region: BA14K; pfam07886 283166003462 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 283166003463 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 283166003464 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 283166003465 active site 283166003466 phosphorylation site [posttranslational modification] 283166003467 intermolecular recognition site; other site 283166003468 dimerization interface [polypeptide binding]; other site 283166003469 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 283166003470 DNA binding site [nucleotide binding] 283166003471 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283166003472 HAMP domain; Region: HAMP; pfam00672 283166003473 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 283166003474 ATP binding site [chemical binding]; other site 283166003475 Mg2+ binding site [ion binding]; other site 283166003476 G-X-G motif; other site 283166003477 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 283166003478 Membrane fusogenic activity; Region: BMFP; pfam04380 283166003479 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 283166003480 Uncharacterized conserved protein [Function unknown]; Region: COG1565 283166003481 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 283166003482 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 283166003483 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 283166003484 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 283166003485 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 283166003486 active site 283166003487 Domain of unknown function DUF87; Region: DUF87; pfam01935 283166003488 HerA helicase [Replication, recombination, and repair]; Region: COG0433 283166003489 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 283166003490 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 283166003491 5S rRNA interface [nucleotide binding]; other site 283166003492 CTC domain interface [polypeptide binding]; other site 283166003493 L16 interface [polypeptide binding]; other site 283166003494 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 283166003495 putative active site [active] 283166003496 catalytic residue [active] 283166003497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 283166003498 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 283166003499 GTP-binding protein YchF; Reviewed; Region: PRK09601 283166003500 YchF GTPase; Region: YchF; cd01900 283166003501 G1 box; other site 283166003502 GTP/Mg2+ binding site [chemical binding]; other site 283166003503 Switch I region; other site 283166003504 G2 box; other site 283166003505 Switch II region; other site 283166003506 G3 box; other site 283166003507 G4 box; other site 283166003508 G5 box; other site 283166003509 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 283166003510 PRC-barrel domain; Region: PRC; pfam05239 283166003511 Identified by comparison to Brucella melitensis;cytochrome c1 283166003512 Identified by comparison to Bartonella henselae;Prophage integrase 283166003513 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 283166003514 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 283166003515 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 283166003516 active site 283166003517 NTP binding site [chemical binding]; other site 283166003518 metal binding triad [ion binding]; metal-binding site 283166003519 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 283166003520 MoxR-like ATPases [General function prediction only]; Region: COG0714 283166003521 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 283166003522 Walker A motif; other site 283166003523 ATP binding site [chemical binding]; other site 283166003524 Walker B motif; other site 283166003525 arginine finger; other site 283166003526 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 283166003527 Protein of unknown function DUF58; Region: DUF58; pfam01882 283166003528 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 283166003529 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 283166003530 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 283166003531 Identified by comparison to Bartonella henselae;Prophage integrase 283166003532 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 283166003533 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 283166003534 active site 283166003535 metal binding site [ion binding]; metal-binding site 283166003536 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 283166003537 Cation efflux family; Region: Cation_efflux; pfam01545 283166003538 Identified by comparison to Brucella;23s ribosomal rna metyltransferase 283166003539 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 283166003540 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 283166003541 Ligand Binding Site [chemical binding]; other site 283166003542 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 283166003543 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 283166003544 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 283166003545 active site 283166003546 phosphorylation site [posttranslational modification] 283166003547 intermolecular recognition site; other site 283166003548 dimerization interface [polypeptide binding]; other site 283166003549 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 283166003550 DNA binding site [nucleotide binding] 283166003551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 283166003552 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 283166003553 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 283166003554 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 283166003555 inhibitor-cofactor binding pocket; inhibition site 283166003556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283166003557 catalytic residue [active] 283166003558 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 283166003559 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 283166003560 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 283166003561 Identified by comparison to Bartonella henselae 283166003562 Identified by comparison to Bartonella henselae 283166003563 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 283166003564 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 283166003565 Walker A/P-loop; other site 283166003566 ATP binding site [chemical binding]; other site 283166003567 Q-loop/lid; other site 283166003568 ABC transporter signature motif; other site 283166003569 Walker B; other site 283166003570 D-loop; other site 283166003571 H-loop/switch region; other site 283166003572 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 283166003573 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 283166003574 Walker A/P-loop; other site 283166003575 ATP binding site [chemical binding]; other site 283166003576 Q-loop/lid; other site 283166003577 ABC transporter signature motif; other site 283166003578 Walker B; other site 283166003579 D-loop; other site 283166003580 H-loop/switch region; other site 283166003581 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 283166003582 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 283166003583 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 283166003584 dimer interface [polypeptide binding]; other site 283166003585 conserved gate region; other site 283166003586 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 283166003587 ABC-ATPase subunit interface; other site 283166003588 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 283166003589 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 283166003590 dimer interface [polypeptide binding]; other site 283166003591 conserved gate region; other site 283166003592 putative PBP binding loops; other site 283166003593 ABC-ATPase subunit interface; other site 283166003594 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 283166003595 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 283166003596 Identified by comparison to Bartonella henselae;abc transporter 283166003597 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 283166003598 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 283166003599 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 283166003600 generic binding surface II; other site 283166003601 generic binding surface I; other site 283166003602 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 283166003603 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 283166003604 Identified by comparison to Bartonella henselae;xsea 283166003605 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 283166003606 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 283166003607 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 283166003608 Ligand binding site [chemical binding]; other site 283166003609 Electron transfer flavoprotein domain; Region: ETF; pfam01012 283166003610 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 283166003611 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 283166003612 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 283166003613 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 283166003614 hydroxyglutarate oxidase; Provisional; Region: PRK11728 283166003615 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 283166003616 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 283166003617 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 283166003618 hypothetical protein; Reviewed; Region: PRK12497 283166003619 Predicted methyltransferases [General function prediction only]; Region: COG0313 283166003620 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 283166003621 putative SAM binding site [chemical binding]; other site 283166003622 putative homodimer interface [polypeptide binding]; other site 283166003623 Identified by comparison to Brucella melitensis;orotidine 5-phosphatase 283166003624 antiporter inner membrane protein; Provisional; Region: PRK11670 283166003625 Domain of unknown function DUF59; Region: DUF59; pfam01883 283166003626 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 283166003627 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 283166003628 ribonuclease P; Reviewed; Region: rnpA; PRK01313 283166003629 membrane protein insertase; Provisional; Region: PRK01318 283166003630 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 283166003631 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 283166003632 G1 box; other site 283166003633 GTP/Mg2+ binding site [chemical binding]; other site 283166003634 Switch I region; other site 283166003635 G2 box; other site 283166003636 G3 box; other site 283166003637 Switch II region; other site 283166003638 G4 box; other site 283166003639 G5 box; other site 283166003640 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 283166003641 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 283166003642 C-terminal domain interface [polypeptide binding]; other site 283166003643 GSH binding site (G-site) [chemical binding]; other site 283166003644 dimer interface [polypeptide binding]; other site 283166003645 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 283166003646 N-terminal domain interface [polypeptide binding]; other site 283166003647 dimer interface [polypeptide binding]; other site 283166003648 substrate binding pocket (H-site) [chemical binding]; other site 283166003649 dihydrodipicolinate reductase; Provisional; Region: PRK00048 283166003650 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 283166003651 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 283166003652 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 283166003653 catalytic core [active] 283166003654 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 283166003655 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 283166003656 ATP binding site [chemical binding]; other site 283166003657 substrate interface [chemical binding]; other site 283166003658 Porin subfamily; Region: Porin_2; pfam02530 283166003659 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 283166003660 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 283166003661 substrate binding site [chemical binding]; other site 283166003662 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 283166003663 amidase catalytic site [active] 283166003664 Zn binding residues [ion binding]; other site 283166003665 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 283166003666 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 283166003667 MPT binding site; other site 283166003668 Identified by comparison to Mesorhizobium loti;tartrate dehydrogenase 283166003669 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 283166003670 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 283166003671 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 283166003672 putative substrate translocation pore; other site 283166003673 Identified by comparison to Bartonella henselae;phage 283166003674 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 283166003675 Identified by comparison to Ralstonia solanacearum; transport protein 283166003676 Identified by comparison to Ralstonia solanacearum;hypothetical protein 283166003677 Identified by comparison to Chlamydia trachomatis;hypothetical protein 283166003678 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 283166003679 metal binding site 2 [ion binding]; metal-binding site 283166003680 putative DNA binding helix; other site 283166003681 metal binding site 1 [ion binding]; metal-binding site 283166003682 dimer interface [polypeptide binding]; other site 283166003683 structural Zn2+ binding site [ion binding]; other site 283166003684 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 283166003685 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 283166003686 HlyD family secretion protein; Region: HlyD_3; pfam13437 283166003687 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 283166003688 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 283166003689 putative substrate translocation pore; other site 283166003690 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 283166003691 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 283166003692 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283166003693 Coenzyme A binding pocket [chemical binding]; other site 283166003694 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 283166003695 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 283166003696 dimer interface [polypeptide binding]; other site 283166003697 active site 283166003698 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283166003699 catalytic residues [active] 283166003700 substrate binding site [chemical binding]; other site 283166003701 Identified by comparison to Bartonella henselae;Prophage integrase 283166003702 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 283166003703 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 283166003704 active site residue [active] 283166003705 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 283166003706 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 283166003707 active site 283166003708 intersubunit interface [polypeptide binding]; other site 283166003709 catalytic residue [active] 283166003710 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 283166003711 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 283166003712 FAD binding pocket [chemical binding]; other site 283166003713 FAD binding motif [chemical binding]; other site 283166003714 phosphate binding motif [ion binding]; other site 283166003715 beta-alpha-beta structure motif; other site 283166003716 NAD binding pocket [chemical binding]; other site 283166003717 Identified by comparison to Bartonella henselae;rpoB 283166003718 Identified by comparison to Bartonella henselae;Prophage integrase 283166003719 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 283166003720 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 283166003721 active site 283166003722 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283166003723 dimer interface [polypeptide binding]; other site 283166003724 substrate binding site [chemical binding]; other site 283166003725 catalytic residues [active] 283166003726 glycine dehydrogenase; Provisional; Region: PRK05367 283166003727 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 283166003728 tetramer interface [polypeptide binding]; other site 283166003729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283166003730 catalytic residue [active] 283166003731 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 283166003732 tetramer interface [polypeptide binding]; other site 283166003733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283166003734 catalytic residue [active] 283166003735 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 283166003736 lipoyl attachment site [posttranslational modification]; other site 283166003737 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 283166003738 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 283166003739 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 283166003740 Uncharacterized conserved protein [Function unknown]; Region: COG2835 283166003741 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283166003742 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 283166003743 non-specific DNA binding site [nucleotide binding]; other site 283166003744 salt bridge; other site 283166003745 sequence-specific DNA binding site [nucleotide binding]; other site 283166003746 Identified by comparison to Bartonella henselae;Prophage integrase 283166003747 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 283166003748 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 283166003749 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 283166003750 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 283166003751 Bacterial SH3 domain; Region: SH3_3; pfam08239 283166003752 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 283166003753 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 283166003754 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 283166003755 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 283166003756 Walker A/P-loop; other site 283166003757 ATP binding site [chemical binding]; other site 283166003758 Q-loop/lid; other site 283166003759 ABC transporter signature motif; other site 283166003760 Walker B; other site 283166003761 D-loop; other site 283166003762 H-loop/switch region; other site 283166003763 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 283166003764 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 283166003765 dimer interface [polypeptide binding]; other site 283166003766 conserved gate region; other site 283166003767 ABC-ATPase subunit interface; other site 283166003768 Identified by comparison to Bartonella henselae;Prophage integrase 283166003769 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 283166003770 putative active site [active] 283166003771 putative catalytic site [active] 283166003772 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 283166003773 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 283166003774 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 283166003775 Creatinine amidohydrolase; Region: Creatininase; pfam02633 283166003776 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 283166003777 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 283166003778 P-loop, Walker A motif; other site 283166003779 Base recognition motif; other site 283166003780 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 283166003781 FOG: WD40 repeat [General function prediction only]; Region: COG2319 283166003782 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 283166003783 structural tetrad; other site 283166003784 Identified by comparison to Bartonella henselae;Prophage integrase 283166003785 Autotransporter beta-domain; Region: Autotransporter; smart00869 283166003786 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 283166003787 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 283166003788 Autotransporter beta-domain; Region: Autotransporter; smart00869 283166003789 Identified by comparison to Bartonella quintana;fatD 283166003790 Identified by comparison to Bartonella quintana;fatC 283166003791 Identified by comparison to Bartonella quintana;ceuE 283166003792 Identified by comparison to Bartonella quintana 283166003793 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 283166003794 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 283166003795 Identified by comparison to Bartonella henselae 283166003796 Identified by comparison to Bartonella henselae 283166003797 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 283166003798 Autotransporter beta-domain; Region: Autotransporter; smart00869 283166003799 Identified by comparison to Bartonella henselae;Prophage integrase 283166003800 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 283166003801 Autotransporter beta-domain; Region: Autotransporter; smart00869 283166003802 Identified by comparison to Bartonella henselae;Prophage integrase 283166003803 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 283166003804 Autotransporter beta-domain; Region: Autotransporter; smart00869 283166003805 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 283166003806 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 283166003807 Autotransporter beta-domain; Region: Autotransporter; smart00869 283166003808 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 283166003809 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 283166003810 AAA domain; Region: AAA_31; pfam13614 283166003811 P-loop; other site 283166003812 Magnesium ion binding site [ion binding]; other site 283166003813 Putative phosphatase (DUF442); Region: DUF442; cl17385 283166003814 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 283166003815 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 283166003816 active site 283166003817 Riboflavin kinase; Region: Flavokinase; smart00904 283166003818 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 283166003819 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 283166003820 active site 283166003821 motif I; other site 283166003822 motif II; other site 283166003823 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 283166003824 motif II; other site 283166003825 Identified by comparison to Bartonella henselae;ribF 283166003826 hypothetical protein; Provisional; Region: PRK06518 283166003827 Staphylococcal nuclease homologues; Region: SNc; smart00318 283166003828 Catalytic site; other site 283166003829 TrbC/VIRB2 family; Region: TrbC; pfam04956 283166003830 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 283166003831 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 283166003832 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 283166003833 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; cl01837 283166003834 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 283166003835 VirB8 protein; Region: VirB8; cl01500 283166003836 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 283166003837 VirB7 interaction site; other site 283166003838 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 283166003839 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 283166003840 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 283166003841 Walker A motif; other site 283166003842 hexamer interface [polypeptide binding]; other site 283166003843 ATP binding site [chemical binding]; other site 283166003844 Walker B motif; other site 283166003845 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 283166003846 FIC domain binding interface [polypeptide binding]; other site 283166003847 Fic/DOC family; Region: Fic; cl00960 283166003848 Ti-type conjugative transfer system protein TraG; Region: TraG-Ti; TIGR02767 283166003849 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 283166003850 Walker A motif; other site 283166003851 ATP binding site [chemical binding]; other site 283166003852 Walker B motif; other site 283166003853 Fic/DOC family; Region: Fic; cl00960 283166003854 Fic/DOC family; Region: Fic; cl00960 283166003855 Dtr system oriT relaxase; Provisional; Region: PRK13826 283166003856 Identified by comparison to Bartonella henselae;Prophage integrase 283166003857 integral membrane protein MviN; Region: mviN; TIGR01695 283166003858 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 283166003859 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 283166003860 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 283166003861 active site 283166003862 HIGH motif; other site 283166003863 dimer interface [polypeptide binding]; other site 283166003864 KMSKS motif; other site 283166003865 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 283166003866 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 283166003867 Ligand Binding Site [chemical binding]; other site 283166003868 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 283166003869 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 283166003870 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 283166003871 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 283166003872 PhnA protein; Region: PhnA; pfam03831 283166003873 Identified by comparison to Bartonella henselae;Prophage integrase 283166003874 Prophage integrase;Identified by comparison to Bartonella henselae 283166003875 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 283166003876 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 283166003877 ring oligomerisation interface [polypeptide binding]; other site 283166003878 ATP/Mg binding site [chemical binding]; other site 283166003879 stacking interactions; other site 283166003880 hinge regions; other site 283166003881 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 283166003882 oligomerisation interface [polypeptide binding]; other site 283166003883 mobile loop; other site 283166003884 roof hairpin; other site 283166003885 fumarate hydratase; Reviewed; Region: fumC; PRK00485 283166003886 Class II fumarases; Region: Fumarase_classII; cd01362 283166003887 active site 283166003888 tetramer interface [polypeptide binding]; other site 283166003889 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283166003890 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 283166003891 non-specific DNA binding site [nucleotide binding]; other site 283166003892 salt bridge; other site 283166003893 sequence-specific DNA binding site [nucleotide binding]; other site 283166003894 phosphoglucomutase; Region: PLN02307 283166003895 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 283166003896 active site 283166003897 substrate binding site [chemical binding]; other site 283166003898 metal binding site [ion binding]; metal-binding site 283166003899 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 283166003900 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 283166003901 catalytic triad [active] 283166003902 dimer interface [polypeptide binding]; other site 283166003903 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283166003904 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 283166003905 non-specific DNA binding site [nucleotide binding]; other site 283166003906 salt bridge; other site 283166003907 sequence-specific DNA binding site [nucleotide binding]; other site 283166003908 Identified by comparison to Bartonella henselae;Prophage integrase 283166003909 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 283166003910 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 283166003911 dimer interface [polypeptide binding]; other site 283166003912 motif 1; other site 283166003913 active site 283166003914 motif 2; other site 283166003915 motif 3; other site 283166003916 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 283166003917 anticodon binding site; other site 283166003918 RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]; Region: ROM1; COG5422 283166003919 Identified by comparison to Bartonella henselae;Prophage integrase 283166003920 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 283166003921 active site 283166003922 dimer interface [polypeptide binding]; other site 283166003923 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 283166003924 Identified by comparison to Ralstonia solanacearum; transport protein 283166003925 Identified by comparison to Ralstonia solanacearum;hypothetical protein 283166003926 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 283166003927 Identified by comparison to Ralstonia solanacearum; transport protein 283166003928 Identified by comparison to Ralstonia solanacearum;hypothetical protein 283166003929 Identified by comparison to Chlamydia trachomatis;hypothetical protein 283166003930 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 283166003931 Peptidase family M23; Region: Peptidase_M23; pfam01551 283166003932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 283166003933 Histidine kinase; Region: HisKA_2; pfam07568 283166003934 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 283166003935 ATP binding site [chemical binding]; other site 283166003936 Mg2+ binding site [ion binding]; other site 283166003937 G-X-G motif; other site 283166003938 RNA polymerase sigma factor; Provisional; Region: PRK12547 283166003939 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283166003940 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 283166003941 DNA binding residues [nucleotide binding] 283166003942 two-component response regulator; Provisional; Region: PRK09191 283166003943 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 283166003944 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 283166003945 active site 283166003946 phosphorylation site [posttranslational modification] 283166003947 intermolecular recognition site; other site 283166003948 dimerization interface [polypeptide binding]; other site 283166003949 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 283166003950 HWE histidine kinase; Region: HWE_HK; pfam07536 283166003951 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 283166003952 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 283166003953 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 283166003954 Identified by comparison to Bartonella henselae;Prophage integrase 283166003955 Identified by comparison to Bartonella henselae;Prophage integrase 283166003956 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 283166003957 catalytic residues [active] 283166003958 EAP30/Vps36 family; Region: EAP30; pfam04157 283166003959 Phage Tail Collar Domain; Region: Collar; pfam07484 283166003960 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 283166003961 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 283166003962 Phage terminase large subunit; Region: Terminase_3; cl12054 283166003963 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 283166003964 Clp amino terminal domain; Region: Clp_N; pfam02861 283166003965 Clp amino terminal domain; Region: Clp_N; pfam02861 283166003966 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 283166003967 Walker A motif; other site 283166003968 ATP binding site [chemical binding]; other site 283166003969 Walker B motif; other site 283166003970 arginine finger; other site 283166003971 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 283166003972 Walker A motif; other site 283166003973 ATP binding site [chemical binding]; other site 283166003974 Walker B motif; other site 283166003975 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 283166003976 zinc-binding protein; Provisional; Region: PRK01343 283166003977 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 283166003978 active site 283166003979 dimer interface [polypeptide binding]; other site 283166003980 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 283166003981 rRNA binding site [nucleotide binding]; other site 283166003982 predicted 30S ribosome binding site; other site 283166003983 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 283166003984 non-specific DNA binding site [nucleotide binding]; other site 283166003985 salt bridge; other site 283166003986 sequence-specific DNA binding site [nucleotide binding]; other site 283166003987 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 283166003988 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283166003989 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 283166003990 non-specific DNA binding site [nucleotide binding]; other site 283166003991 salt bridge; other site 283166003992 sequence-specific DNA binding site [nucleotide binding]; other site 283166003993 Identified by comparison to Escherichia coli;dinJ 283166003994 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 283166003995 Identified by comparison to Bartonella henselae;proteic killer suppression 283166003996 AIR carboxylase; Region: AIRC; cl00310 283166003997 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 283166003998 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 283166003999 ATP-grasp domain; Region: ATP-grasp; pfam02222 283166004000 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 283166004001 TPR repeat; Region: TPR_11; pfam13414 283166004002 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 283166004003 TPR motif; other site 283166004004 TPR repeat; Region: TPR_11; pfam13414 283166004005 binding surface 283166004006 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 283166004007 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283166004008 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 283166004009 non-specific DNA binding site [nucleotide binding]; other site 283166004010 salt bridge; other site 283166004011 sequence-specific DNA binding site [nucleotide binding]; other site 283166004012 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283166004013 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 283166004014 non-specific DNA binding site [nucleotide binding]; other site 283166004015 salt bridge; other site 283166004016 sequence-specific DNA binding site [nucleotide binding]; other site 283166004017 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 283166004018 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 283166004019 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 283166004020 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 283166004021 putative active site [active] 283166004022 metal binding site [ion binding]; metal-binding site 283166004023 homodimer binding site [polypeptide binding]; other site 283166004024 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 283166004025 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 283166004026 hinge; other site 283166004027 active site 283166004028 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 283166004029 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 283166004030 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 283166004031 active site 283166004032 metal binding site [ion binding]; metal-binding site 283166004033 interdomain interaction site; other site 283166004034 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 283166004035 AAA domain; Region: AAA_25; pfam13481 283166004036 Walker A motif; other site 283166004037 ATP binding site [chemical binding]; other site 283166004038 Walker B motif; other site 283166004039 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 283166004040 catalytic residues [active] 283166004041 Identified by comparison to Bartonella henselae;Prophage integrase 283166004042 Predicted membrane protein [Function unknown]; Region: COG1238 283166004043 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 283166004044 Uncharacterized conserved protein [Function unknown]; Region: COG1633 283166004045 CCC1-related protein family; Region: CCC1_like_1; cd02437 283166004046 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 283166004047 trimer interface [polypeptide binding]; other site 283166004048 active site 283166004049 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 283166004050 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 283166004051 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 283166004052 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 283166004053 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 283166004054 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 283166004055 active site 283166004056 substrate binding site [chemical binding]; other site 283166004057 metal binding site [ion binding]; metal-binding site 283166004058 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 283166004059 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 283166004060 Walker A motif; other site 283166004061 ATP binding site [chemical binding]; other site 283166004062 Walker B motif; other site 283166004063 arginine finger; other site 283166004064 Peptidase family M41; Region: Peptidase_M41; pfam01434 283166004065 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 283166004066 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 283166004067 Ligand Binding Site [chemical binding]; other site 283166004068 Identified by comparison to Mesorhizobium loti;hypothetical protein 283166004069 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 283166004070 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 283166004071 ligand binding site [chemical binding]; other site 283166004072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 283166004073 hypothetical protein; Validated; Region: PRK00110 283166004074 Identified by comparison to Bartonella quintana;plasmid 283166004075 translocation protein TolB; Provisional; Region: tolB; PRK05137 283166004076 TolB amino-terminal domain; Region: TolB_N; pfam04052 283166004077 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 283166004078 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 283166004079 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 283166004080 TolR protein; Region: tolR; TIGR02801 283166004081 TolQ protein; Region: tolQ; TIGR02796 283166004082 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 283166004083 active site 283166004084 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 283166004085 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 283166004086 Walker A motif; other site 283166004087 ATP binding site [chemical binding]; other site 283166004088 Walker B motif; other site 283166004089 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 283166004090 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 283166004091 RuvA N terminal domain; Region: RuvA_N; pfam01330 283166004092 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 283166004093 active site 283166004094 putative DNA-binding cleft [nucleotide binding]; other site 283166004095 dimer interface [polypeptide binding]; other site 283166004096 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 283166004097 OpgC protein; Region: OpgC_C; pfam10129 283166004098 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 283166004099 active site 283166004100 thiamine phosphate binding site [chemical binding]; other site 283166004101 pyrophosphate binding site [ion binding]; other site 283166004102 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 283166004103 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 283166004104 non-specific DNA binding site [nucleotide binding]; other site 283166004105 salt bridge; other site 283166004106 sequence-specific DNA binding site [nucleotide binding]; other site 283166004107 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 283166004108 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 283166004109 elongation factor P; Validated; Region: PRK00529 283166004110 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 283166004111 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 283166004112 RNA binding site [nucleotide binding]; other site 283166004113 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 283166004114 RNA binding site [nucleotide binding]; other site 283166004115 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 283166004116 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 283166004117 active site 283166004118 dimerization interface [polypeptide binding]; other site 283166004119 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 283166004120 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 283166004121 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 283166004122 Walker A/P-loop; other site 283166004123 ATP binding site [chemical binding]; other site 283166004124 Q-loop/lid; other site 283166004125 ABC transporter signature motif; other site 283166004126 Walker B; other site 283166004127 D-loop; other site 283166004128 H-loop/switch region; other site 283166004129 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 283166004130 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 283166004131 active site 283166004132 intersubunit interface [polypeptide binding]; other site 283166004133 catalytic residue [active] 283166004134 Phosphoglycerate kinase; Region: PGK; pfam00162 283166004135 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 283166004136 substrate binding site [chemical binding]; other site 283166004137 hinge regions; other site 283166004138 ADP binding site [chemical binding]; other site 283166004139 catalytic site [active] 283166004140 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 283166004141 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 283166004142 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 283166004143 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 283166004144 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 283166004145 TPP-binding site [chemical binding]; other site 283166004146 dimer interface [polypeptide binding]; other site 283166004147 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 283166004148 PYR/PP interface [polypeptide binding]; other site 283166004149 dimer interface [polypeptide binding]; other site 283166004150 TPP binding site [chemical binding]; other site 283166004151 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 283166004152 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 283166004153 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 283166004154 pyruvate kinase; Provisional; Region: PRK06247 283166004155 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 283166004156 domain interfaces; other site 283166004157 active site 283166004158 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 283166004159 hypothetical protein; Provisional; Region: PRK13694 283166004160 Identified by comparison to Bartonella henselae;Prophage integrase 283166004161 Identified by comparison to Salmonella typhimurium;rimJ 283166004162 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 283166004163 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283166004164 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283166004165 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 283166004166 Thiamine pyrophosphokinase; Region: TPK; cd07995 283166004167 active site 283166004168 dimerization interface [polypeptide binding]; other site 283166004169 thiamine binding site [chemical binding]; other site 283166004170 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 283166004171 Peptidase family M48; Region: Peptidase_M48; cl12018 283166004172 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 283166004173 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283166004174 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 283166004175 DNA binding residues [nucleotide binding] 283166004176 Ferredoxin [Energy production and conversion]; Region: COG1146 283166004177 4Fe-4S binding domain; Region: Fer4; pfam00037 283166004178 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 283166004179 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 283166004180 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 283166004181 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 283166004182 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 283166004183 substrate binding pocket [chemical binding]; other site 283166004184 chain length determination region; other site 283166004185 substrate-Mg2+ binding site; other site 283166004186 catalytic residues [active] 283166004187 aspartate-rich region 1; other site 283166004188 active site lid residues [active] 283166004189 aspartate-rich region 2; other site 283166004190 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 283166004191 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 283166004192 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 283166004193 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 283166004194 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 283166004195 HlyD family secretion protein; Region: HlyD_3; pfam13437 283166004196 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 283166004197 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 283166004198 gamma subunit interface [polypeptide binding]; other site 283166004199 epsilon subunit interface [polypeptide binding]; other site 283166004200 LBP interface [polypeptide binding]; other site 283166004201 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 283166004202 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 283166004203 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 283166004204 alpha subunit interaction interface [polypeptide binding]; other site 283166004205 Walker A motif; other site 283166004206 ATP binding site [chemical binding]; other site 283166004207 Walker B motif; other site 283166004208 inhibitor binding site; inhibition site 283166004209 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 283166004210 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 283166004211 core domain interface [polypeptide binding]; other site 283166004212 delta subunit interface [polypeptide binding]; other site 283166004213 epsilon subunit interface [polypeptide binding]; other site 283166004214 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 283166004215 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 283166004216 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 283166004217 beta subunit interaction interface [polypeptide binding]; other site 283166004218 Walker A motif; other site 283166004219 ATP binding site [chemical binding]; other site 283166004220 Walker B motif; other site 283166004221 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 283166004222 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 283166004223 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 283166004224 primosome assembly protein PriA; Validated; Region: PRK05580 283166004225 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 283166004226 ATP binding site [chemical binding]; other site 283166004227 putative Mg++ binding site [ion binding]; other site 283166004228 helicase superfamily c-terminal domain; Region: HELICc; smart00490 283166004229 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 283166004230 active site 283166004231 intersubunit interactions; other site 283166004232 catalytic residue [active] 283166004233 Lipopolysaccharide-assembly; Region: LptE; cl01125 283166004234 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 283166004235 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 283166004236 HIGH motif; other site 283166004237 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 283166004238 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 283166004239 active site 283166004240 KMSKS motif; other site 283166004241 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 283166004242 tRNA binding surface [nucleotide binding]; other site 283166004243 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 283166004244 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283166004245 catalytic residue [active] 283166004246 acetyl-CoA synthetase; Provisional; Region: PRK00174 283166004247 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 283166004248 active site 283166004249 CoA binding site [chemical binding]; other site 283166004250 acyl-activating enzyme (AAE) consensus motif; other site 283166004251 AMP binding site [chemical binding]; other site 283166004252 acetate binding site [chemical binding]; other site 283166004253 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 283166004254 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 283166004255 Walker A/P-loop; other site 283166004256 ATP binding site [chemical binding]; other site 283166004257 Q-loop/lid; other site 283166004258 ABC transporter signature motif; other site 283166004259 Walker B; other site 283166004260 D-loop; other site 283166004261 H-loop/switch region; other site 283166004262 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 283166004263 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 283166004264 Uncharacterized conserved protein [Function unknown]; Region: COG1434 283166004265 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 283166004266 putative active site [active] 283166004267 Predicted helicase [General function prediction only]; Region: COG4889 283166004268 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 283166004269 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 283166004270 ATP binding site [chemical binding]; other site 283166004271 putative Mg++ binding site [ion binding]; other site 283166004272 helicase superfamily c-terminal domain; Region: HELICc; smart00490 283166004273 ATP-binding site [chemical binding]; other site 283166004274 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 283166004275 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 283166004276 Walker A/P-loop; other site 283166004277 ATP binding site [chemical binding]; other site 283166004278 Q-loop/lid; other site 283166004279 ABC transporter signature motif; other site 283166004280 Walker B; other site 283166004281 D-loop; other site 283166004282 H-loop/switch region; other site 283166004283 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 283166004284 FtsX-like permease family; Region: FtsX; pfam02687 283166004285 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283166004286 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 283166004287 HlyD family secretion protein; Region: HlyD_3; pfam13437 283166004288 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 283166004289 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 283166004290 putative catalytic site [active] 283166004291 putative phosphate binding site [ion binding]; other site 283166004292 active site 283166004293 metal binding site A [ion binding]; metal-binding site 283166004294 DNA binding site [nucleotide binding] 283166004295 putative AP binding site [nucleotide binding]; other site 283166004296 putative metal binding site B [ion binding]; other site 283166004297 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 283166004298 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 283166004299 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 283166004300 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 283166004301 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 283166004302 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 283166004303 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 283166004304 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 283166004305 H-NS histone family; Region: Histone_HNS; pfam00816 283166004306 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 283166004307 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 283166004308 TrbC/VIRB2 family; Region: TrbC; pfam04956 283166004309 TrbC/VIRB2 family; Region: TrbC; pfam04956 283166004310 TrbC/VIRB2 family; Region: TrbC; pfam04956 283166004311 TrbC/VIRB2 family; Region: TrbC; pfam04956 283166004312 TrbC/VIRB2 family; Region: TrbC; cl01583 283166004313 TrbC/VIRB2 family; Region: TrbC; pfam04956 283166004314 TrbC/VIRB2 family; Region: TrbC; pfam04956 283166004315 Type IV secretory pathway, VirB3-like protein; Region: VirB3; pfam05101 283166004316 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 283166004317 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 283166004318 Type IV secretion system proteins; Region: T4SS; pfam07996 283166004319 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 283166004320 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 283166004321 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 283166004322 Type IV secretion system proteins; Region: T4SS; pfam07996 283166004323 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 283166004324 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 283166004325 VirB8 protein; Region: VirB8; pfam04335 283166004326 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 283166004327 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 283166004328 VirB7 interaction site; other site 283166004329 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 283166004330 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 283166004331 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 283166004332 Walker A motif; other site 283166004333 hexamer interface [polypeptide binding]; other site 283166004334 ATP binding site [chemical binding]; other site 283166004335 Walker B motif; other site 283166004336 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 283166004337 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 283166004338 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 283166004339 L-aspartate oxidase; Provisional; Region: PRK06175 283166004340 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 283166004341 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 283166004342 putative SdhC subunit interface [polypeptide binding]; other site 283166004343 putative proximal heme binding site [chemical binding]; other site 283166004344 putative Iron-sulfur protein interface [polypeptide binding]; other site 283166004345 putative proximal quinone binding site; other site 283166004346 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 283166004347 Iron-sulfur protein interface; other site 283166004348 proximal quinone binding site [chemical binding]; other site 283166004349 SdhD (CybS) interface [polypeptide binding]; other site 283166004350 proximal heme binding site [chemical binding]; other site 283166004351 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 283166004352 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 283166004353 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 283166004354 RimM N-terminal domain; Region: RimM; pfam01782 283166004355 PRC-barrel domain; Region: PRC; pfam05239 283166004356 SapC; Region: SapC; pfam07277 283166004357 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 283166004358 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 283166004359 active site 283166004360 DNA binding site [nucleotide binding] 283166004361 Int/Topo IB signature motif; other site 283166004362 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 283166004363 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 283166004364 HSP70 interaction site [polypeptide binding]; other site 283166004365 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 283166004366 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 283166004367 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 283166004368 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 283166004369 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 283166004370 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 283166004371 metal ion-dependent adhesion site (MIDAS); other site 283166004372 Identified by comparison to Bartonella henselae 283166004373 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 283166004374 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 283166004375 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 283166004376 Identified by comparison to Xylella fastidiosa;plasmid protein 283166004377 Identified by comparison to Bartonella henselae;Prophage integrase 283166004378 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 283166004379 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 283166004380 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 283166004381 purine monophosphate binding site [chemical binding]; other site 283166004382 dimer interface [polypeptide binding]; other site 283166004383 putative catalytic residues [active] 283166004384 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 283166004385 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 283166004386 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 283166004387 NusB family; Region: NusB; pfam01029 283166004388 putative RNA binding site [nucleotide binding]; other site 283166004389 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 283166004390 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 283166004391 S-adenosylmethionine binding site [chemical binding]; other site 283166004392 heat shock protein HtpX; Provisional; Region: PRK01345 283166004393 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 283166004394 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 283166004395 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 283166004396 chorismate mutase; Provisional; Region: PRK09239 283166004397 signal recognition particle protein; Provisional; Region: PRK10867 283166004398 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 283166004399 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 283166004400 P loop; other site 283166004401 GTP binding site [chemical binding]; other site 283166004402 Signal peptide binding domain; Region: SRP_SPB; pfam02978 283166004403 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 283166004404 active site clefts [active] 283166004405 zinc binding site [ion binding]; other site 283166004406 dimer interface [polypeptide binding]; other site 283166004407 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 283166004408 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 283166004409 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 283166004410 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 283166004411 catalytic triad [active] 283166004412 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 283166004413 HemY protein N-terminus; Region: HemY_N; pfam07219 283166004414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 283166004415 UGMP family protein; Validated; Region: PRK09604 283166004416 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 283166004417 EVE domain; Region: EVE; cl00728 283166004418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 283166004419 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 283166004420 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 283166004421 active site 283166004422 phosphorylation site [posttranslational modification] 283166004423 intermolecular recognition site; other site 283166004424 dimerization interface [polypeptide binding]; other site 283166004425 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 283166004426 DNA binding site [nucleotide binding] 283166004427 Methyltransferase domain; Region: Methyltransf_23; pfam13489 283166004428 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 283166004429 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 283166004430 diaminopimelate decarboxylase; Region: lysA; TIGR01048 283166004431 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 283166004432 active site 283166004433 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283166004434 substrate binding site [chemical binding]; other site 283166004435 catalytic residues [active] 283166004436 dimer interface [polypeptide binding]; other site 283166004437 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 283166004438 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 283166004439 catalytic residues [active] 283166004440 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 283166004441 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 283166004442 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 283166004443 prephenate dehydrogenase; Validated; Region: PRK08507 283166004444 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 283166004445 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 283166004446 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 283166004447 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 283166004448 Walker A/P-loop; other site 283166004449 ATP binding site [chemical binding]; other site 283166004450 Q-loop/lid; other site 283166004451 ABC transporter signature motif; other site 283166004452 Walker B; other site 283166004453 D-loop; other site 283166004454 H-loop/switch region; other site 283166004455 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 283166004456 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 283166004457 TM-ABC transporter signature motif; other site 283166004458 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 283166004459 zinc binding site [ion binding]; other site 283166004460 putative ligand binding site [chemical binding]; other site 283166004461 Predicted flavoprotein [General function prediction only]; Region: COG0431 283166004462 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 283166004463 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 283166004464 dimer interface [polypeptide binding]; other site 283166004465 substrate binding site [chemical binding]; other site 283166004466 ATP binding site [chemical binding]; other site 283166004467 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 283166004468 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 283166004469 putative acyl-acceptor binding pocket; other site 283166004470 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 283166004471 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 283166004472 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 283166004473 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 283166004474 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 283166004475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 283166004476 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 283166004477 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 283166004478 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 283166004479 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 283166004480 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 283166004481 active site 283166004482 DNA binding site [nucleotide binding] 283166004483 Int/Topo IB signature motif; other site 283166004484 shikimate kinase; Provisional; Region: PRK13946 283166004485 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 283166004486 ADP binding site [chemical binding]; other site 283166004487 magnesium binding site [ion binding]; other site 283166004488 putative shikimate binding site; other site 283166004489 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 283166004490 active site 283166004491 dimer interface [polypeptide binding]; other site 283166004492 metal binding site [ion binding]; metal-binding site 283166004493 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 283166004494 Predicted periplasmic protein [General function prediction only]; Region: COG3895 283166004495 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 283166004496 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 283166004497 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 283166004498 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 283166004499 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 283166004500 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 283166004501 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 283166004502 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 283166004503 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 283166004504 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 283166004505 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 283166004506 BA14K-like protein; Region: BA14K; pfam07886 283166004507 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 283166004508 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 283166004509 dimer interface [polypeptide binding]; other site 283166004510 active site 283166004511 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283166004512 catalytic residues [active] 283166004513 substrate binding site [chemical binding]; other site 283166004514 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 283166004515 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 283166004516 NAD(P) binding pocket [chemical binding]; other site 283166004517 Identified by comparison to Bartonella henselae;Prophage integrase 283166004518 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 283166004519 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 283166004520 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 283166004521 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 283166004522 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 283166004523 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 283166004524 E3 interaction surface; other site 283166004525 lipoyl attachment site [posttranslational modification]; other site 283166004526 e3 binding domain; Region: E3_binding; pfam02817 283166004527 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 283166004528 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 283166004529 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 283166004530 TPP-binding site [chemical binding]; other site 283166004531 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 283166004532 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 283166004533 CoA binding domain; Region: CoA_binding; smart00881 283166004534 CoA-ligase; Region: Ligase_CoA; pfam00549 283166004535 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 283166004536 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 283166004537 CoA-ligase; Region: Ligase_CoA; pfam00549 283166004538 malate dehydrogenase; Reviewed; Region: PRK06223 283166004539 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 283166004540 NAD(P) binding site [chemical binding]; other site 283166004541 dimer interface [polypeptide binding]; other site 283166004542 tetramer (dimer of dimers) interface [polypeptide binding]; other site 283166004543 substrate binding site [chemical binding]; other site 283166004544 Predicted ATPase [General function prediction only]; Region: COG1485 283166004545 RNA helicase; Region: RNA_helicase; pfam00910 283166004546 Protease inhibitor Inh; Region: Inh; pfam02974 283166004547 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 283166004548 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 283166004549 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 283166004550 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 283166004551 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 283166004552 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 283166004553 FeS/SAM binding site; other site 283166004554 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 283166004555 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 283166004556 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 283166004557 P loop; other site 283166004558 GTP binding site [chemical binding]; other site 283166004559 intracellular septation protein A; Reviewed; Region: PRK00259 283166004560 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 283166004561 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 283166004562 ParB-like nuclease domain; Region: ParB; smart00470 283166004563 KorB domain; Region: KorB; pfam08535 283166004564 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 283166004565 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 283166004566 P-loop; other site 283166004567 Magnesium ion binding site [ion binding]; other site 283166004568 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 283166004569 Magnesium ion binding site [ion binding]; other site 283166004570 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 283166004571 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 283166004572 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 283166004573 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 283166004574 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 283166004575 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 283166004576 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 283166004577 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 283166004578 trmE is a tRNA modification GTPase; Region: trmE; cd04164 283166004579 G1 box; other site 283166004580 GTP/Mg2+ binding site [chemical binding]; other site 283166004581 Switch I region; other site 283166004582 G2 box; other site 283166004583 Switch II region; other site 283166004584 G3 box; other site 283166004585 G4 box; other site 283166004586 G5 box; other site 283166004587 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 283166004588 transcription termination factor Rho; Provisional; Region: rho; PRK09376 283166004589 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 283166004590 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 283166004591 RNA binding site [nucleotide binding]; other site 283166004592 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 283166004593 multimer interface [polypeptide binding]; other site 283166004594 Walker A motif; other site 283166004595 ATP binding site [chemical binding]; other site 283166004596 Walker B motif; other site