-- dump date 20140619_000827 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1094489000001 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1094489000002 Maf-like protein; Region: Maf; pfam02545 1094489000003 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 1094489000004 active site 1094489000005 dimer interface [polypeptide binding]; other site 1094489000006 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1094489000007 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1094489000008 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 1094489000009 CoA-binding site [chemical binding]; other site 1094489000010 ATP-binding [chemical binding]; other site 1094489000011 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1094489000012 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 1094489000013 active site 1094489000014 catalytic site [active] 1094489000015 substrate binding site [chemical binding]; other site 1094489000016 DNA polymerase I; Region: pola; TIGR00593 1094489000017 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1094489000018 active site 1094489000019 metal binding site 1 [ion binding]; metal-binding site 1094489000020 putative 5' ssDNA interaction site; other site 1094489000021 metal binding site 3; metal-binding site 1094489000022 metal binding site 2 [ion binding]; metal-binding site 1094489000023 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1094489000024 putative DNA binding site [nucleotide binding]; other site 1094489000025 putative metal binding site [ion binding]; other site 1094489000026 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 1094489000027 active site 1094489000028 catalytic site [active] 1094489000029 substrate binding site [chemical binding]; other site 1094489000030 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1094489000031 active site 1094489000032 DNA binding site [nucleotide binding] 1094489000033 catalytic site [active] 1094489000034 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1094489000035 putative catalytic site [active] 1094489000036 putative metal binding site [ion binding]; other site 1094489000037 putative phosphate binding site [ion binding]; other site 1094489000038 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1094489000039 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1094489000040 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1094489000041 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1094489000042 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1094489000043 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1094489000044 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1094489000045 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1094489000046 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 1094489000047 IHF dimer interface [polypeptide binding]; other site 1094489000048 IHF - DNA interface [nucleotide binding]; other site 1094489000049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1094489000050 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1094489000051 OstA-like protein; Region: OstA; pfam03968 1094489000052 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1094489000053 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1094489000054 Walker A/P-loop; other site 1094489000055 ATP binding site [chemical binding]; other site 1094489000056 Q-loop/lid; other site 1094489000057 ABC transporter signature motif; other site 1094489000058 Walker B; other site 1094489000059 D-loop; other site 1094489000060 H-loop/switch region; other site 1094489000061 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 1094489000062 active site 1094489000063 phosphorylation site [posttranslational modification] 1094489000064 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1094489000065 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1094489000066 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 1094489000067 FeS/SAM binding site; other site 1094489000068 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1094489000069 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094489000070 active site 1094489000071 nucleotide binding site [chemical binding]; other site 1094489000072 HIGH motif; other site 1094489000073 KMSKS motif; other site 1094489000074 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1094489000075 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1094489000076 G1 box; other site 1094489000077 putative GEF interaction site [polypeptide binding]; other site 1094489000078 GTP/Mg2+ binding site [chemical binding]; other site 1094489000079 Switch I region; other site 1094489000080 G2 box; other site 1094489000081 G3 box; other site 1094489000082 Switch II region; other site 1094489000083 G4 box; other site 1094489000084 G5 box; other site 1094489000085 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 1094489000086 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 1094489000087 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1094489000088 catalytic residues [active] 1094489000089 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1094489000090 Part of AAA domain; Region: AAA_19; pfam13245 1094489000091 Family description; Region: UvrD_C_2; pfam13538 1094489000092 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1094489000093 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 1094489000094 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1094489000095 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1094489000096 PAS fold; Region: PAS_7; pfam12860 1094489000097 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1094489000098 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 1094489000099 dimer interface [polypeptide binding]; other site 1094489000100 phosphorylation site [posttranslational modification] 1094489000101 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 1094489000102 ATP binding site [chemical binding]; other site 1094489000103 Mg2+ binding site [ion binding]; other site 1094489000104 G-X-G motif; other site 1094489000105 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1094489000106 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1094489000107 homotetramer interface [polypeptide binding]; other site 1094489000108 ligand binding site [chemical binding]; other site 1094489000109 catalytic site [active] 1094489000110 NAD binding site [chemical binding]; other site 1094489000111 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1094489000112 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1094489000113 putative NAD(P) binding site [chemical binding]; other site 1094489000114 active site 1094489000115 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1094489000116 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1094489000117 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1094489000118 CysZ-like protein; Reviewed; Region: PRK12768 1094489000119 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 1094489000120 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1094489000121 Flavoprotein; Region: Flavoprotein; pfam02441 1094489000122 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1094489000123 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1094489000124 ABC1 family; Region: ABC1; cl17513 1094489000125 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1094489000126 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 1094489000127 S-adenosylmethionine binding site [chemical binding]; other site 1094489000128 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1094489000129 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 1094489000130 Mg2+ binding site [ion binding]; other site 1094489000131 G-X-G motif; other site 1094489000132 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 1094489000133 anchoring element; other site 1094489000134 dimer interface [polypeptide binding]; other site 1094489000135 ATP binding site [chemical binding]; other site 1094489000136 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 1094489000137 active site 1094489000138 putative metal-binding site [ion binding]; other site 1094489000139 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1094489000140 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1094489000141 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 1094489000142 substrate binding pocket [chemical binding]; other site 1094489000143 membrane-bound complex binding site; other site 1094489000144 hinge residues; other site 1094489000145 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1094489000146 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1094489000147 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 1094489000148 Walker A motif; other site 1094489000149 ATP binding site [chemical binding]; other site 1094489000150 Walker B motif; other site 1094489000151 arginine finger; other site 1094489000152 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1094489000153 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1094489000154 Surface antigen; Region: Bac_surface_Ag; pfam01103 1094489000155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1094489000156 Family of unknown function (DUF490); Region: DUF490; pfam04357 1094489000157 Family of unknown function (DUF490); Region: DUF490; pfam04357 1094489000158 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1094489000159 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1094489000160 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1094489000161 Walker A/P-loop; other site 1094489000162 ATP binding site [chemical binding]; other site 1094489000163 Q-loop/lid; other site 1094489000164 ABC transporter signature motif; other site 1094489000165 Walker B; other site 1094489000166 D-loop; other site 1094489000167 H-loop/switch region; other site 1094489000168 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1094489000169 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1094489000170 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1094489000171 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1094489000172 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1094489000173 Protein of unknown function DUF45; Region: DUF45; pfam01863 1094489000174 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1094489000175 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1094489000176 metal binding site [ion binding]; metal-binding site 1094489000177 dimer interface [polypeptide binding]; other site 1094489000178 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 1094489000179 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 1094489000180 FeS/SAM binding site; other site 1094489000181 HemN C-terminal domain; Region: HemN_C; pfam06969 1094489000182 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 1094489000183 active site 1094489000184 dimerization interface [polypeptide binding]; other site 1094489000185 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 1094489000186 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 1094489000187 P-loop; other site 1094489000188 Transcriptional activator TraM; Region: Activator-TraM; cl11943 1094489000189 PemK-like protein; Region: PemK; pfam02452 1094489000190 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 1094489000191 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1094489000192 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1094489000193 putative active site [active] 1094489000194 ParA-like protein; Provisional; Region: PHA02518 1094489000195 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 1094489000196 P-loop; other site 1094489000197 Magnesium ion binding site [ion binding]; other site 1094489000198 PemK-like protein; Region: PemK; cl00995 1094489000199 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1094489000200 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1094489000201 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1094489000202 catalytic residues [active] 1094489000203 catalytic nucleophile [active] 1094489000204 Presynaptic Site I dimer interface [polypeptide binding]; other site 1094489000205 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1094489000206 Synaptic Flat tetramer interface [polypeptide binding]; other site 1094489000207 Synaptic Site I dimer interface [polypeptide binding]; other site 1094489000208 DNA binding site [nucleotide binding] 1094489000209 Predicted transcriptional regulator [Transcription]; Region: COG3905 1094489000210 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1094489000211 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1094489000212 heat shock protein GrpE; Provisional; Region: PRK14141 1094489000213 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 1094489000214 dimer interface [polypeptide binding]; other site 1094489000215 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1094489000216 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1094489000217 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1094489000218 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1094489000219 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 1094489000220 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 1094489000221 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1094489000222 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; cl01054 1094489000223 dimerization interface [polypeptide binding]; other site 1094489000224 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 1094489000225 dimer interface [polypeptide binding]; other site 1094489000226 phosphorylation site [posttranslational modification] 1094489000227 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 1094489000228 ATP binding site [chemical binding]; other site 1094489000229 Mg2+ binding site [ion binding]; other site 1094489000230 G-X-G motif; other site 1094489000231 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1094489000232 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 1094489000233 active site 1094489000234 phosphorylation site [posttranslational modification] 1094489000235 intermolecular recognition site; other site 1094489000236 dimerization interface [polypeptide binding]; other site 1094489000237 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 1094489000238 DNA binding site [nucleotide binding] 1094489000239 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1094489000240 BON domain; Region: BON; pfam04972 1094489000241 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1094489000242 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1094489000243 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1094489000244 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1094489000245 nucleotide binding site [chemical binding]; other site 1094489000246 NEF interaction site [polypeptide binding]; other site 1094489000247 SBD interface [polypeptide binding]; other site 1094489000248 chaperone protein DnaJ; Provisional; Region: PRK10767 1094489000249 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 1094489000250 HSP70 interaction site [polypeptide binding]; other site 1094489000251 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1094489000252 substrate binding site [polypeptide binding]; other site 1094489000253 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1094489000254 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1094489000255 dimer interface [polypeptide binding]; other site 1094489000256 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 1094489000257 homohexameric interface [polypeptide binding]; other site 1094489000258 feedback inhibition sensing region; other site 1094489000259 nucleotide binding site [chemical binding]; other site 1094489000260 N-acetyl-L-glutamate binding site [chemical binding]; other site 1094489000261 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1094489000262 EamA-like transporter family; Region: EamA; pfam00892 1094489000263 GTP-binding protein LepA; Provisional; Region: PRK05433 1094489000264 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1094489000265 G1 box; other site 1094489000266 putative GEF interaction site [polypeptide binding]; other site 1094489000267 GTP/Mg2+ binding site [chemical binding]; other site 1094489000268 Switch I region; other site 1094489000269 G2 box; other site 1094489000270 G3 box; other site 1094489000271 Switch II region; other site 1094489000272 G4 box; other site 1094489000273 G5 box; other site 1094489000274 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 1094489000275 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 1094489000276 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1094489000277 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1094489000278 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 1094489000279 trimer interface [polypeptide binding]; other site 1094489000280 active site 1094489000281 substrate binding site [chemical binding]; other site 1094489000282 CoA binding site [chemical binding]; other site 1094489000283 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1094489000284 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1094489000285 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1094489000286 dimerization interface 3.5A [polypeptide binding]; other site 1094489000287 active site 1094489000288 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1094489000289 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1094489000290 putative active site [active] 1094489000291 substrate binding site [chemical binding]; other site 1094489000292 putative cosubstrate binding site; other site 1094489000293 catalytic site [active] 1094489000294 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1094489000295 substrate binding site [chemical binding]; other site 1094489000296 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 1094489000297 active site 1094489000298 catalytic residues [active] 1094489000299 metal binding site [ion binding]; metal-binding site 1094489000300 RmuC family; Region: RmuC; pfam02646 1094489000301 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 1094489000302 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1094489000303 catalytic residue [active] 1094489000304 Uncharacterized small protein [Function unknown]; Region: COG5568 1094489000305 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1094489000306 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 1094489000307 putative dimer interface [polypeptide binding]; other site 1094489000308 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1094489000309 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1094489000310 minor groove reading motif; other site 1094489000311 helix-hairpin-helix signature motif; other site 1094489000312 substrate binding pocket [chemical binding]; other site 1094489000313 active site 1094489000314 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1094489000315 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1094489000316 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1094489000317 23S rRNA binding site [nucleotide binding]; other site 1094489000318 L21 binding site [polypeptide binding]; other site 1094489000319 L13 binding site [polypeptide binding]; other site 1094489000320 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1094489000321 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1094489000322 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 1094489000323 dimer interface [polypeptide binding]; other site 1094489000324 motif 1; other site 1094489000325 active site 1094489000326 motif 2; other site 1094489000327 motif 3; other site 1094489000328 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1094489000329 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 1094489000330 putative tRNA-binding site [nucleotide binding]; other site 1094489000331 B3/4 domain; Region: B3_4; pfam03483 1094489000332 tRNA synthetase B5 domain; Region: B5; smart00874 1094489000333 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 1094489000334 dimer interface [polypeptide binding]; other site 1094489000335 motif 1; other site 1094489000336 motif 3; other site 1094489000337 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1094489000338 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1094489000339 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 1094489000340 metal binding site [ion binding]; metal-binding site 1094489000341 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 1094489000342 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1094489000343 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1094489000344 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 1094489000345 ABC-ATPase subunit interface; other site 1094489000346 dimer interface [polypeptide binding]; other site 1094489000347 putative PBP binding regions; other site 1094489000348 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1094489000349 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 1094489000350 ABC-ATPase subunit interface; other site 1094489000351 dimer interface [polypeptide binding]; other site 1094489000352 putative PBP binding regions; other site 1094489000353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1094489000354 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 1094489000355 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 1094489000356 active site 1094489000357 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1094489000358 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 1094489000359 RNA binding site [nucleotide binding]; other site 1094489000360 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 1094489000361 RNA binding site [nucleotide binding]; other site 1094489000362 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 1094489000363 RNA binding site [nucleotide binding]; other site 1094489000364 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 1094489000365 RNA binding site [nucleotide binding]; other site 1094489000366 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 1094489000367 RNA binding site [nucleotide binding]; other site 1094489000368 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 1094489000369 RNA binding site [nucleotide binding]; other site 1094489000370 cytidylate kinase; Provisional; Region: cmk; PRK00023 1094489000371 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 1094489000372 CMP-binding site; other site 1094489000373 The sites determining sugar specificity; other site 1094489000374 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1094489000375 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 1094489000376 hinge; other site 1094489000377 active site 1094489000378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 1094489000379 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 1094489000380 DNA polymerase; Provisional; Region: PHA02563 1094489000381 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1094489000382 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1094489000383 MutS domain I; Region: MutS_I; pfam01624 1094489000384 MutS domain II; Region: MutS_II; pfam05188 1094489000385 MutS domain III; Region: MutS_III; pfam05192 1094489000386 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1094489000387 Walker A/P-loop; other site 1094489000388 ATP binding site [chemical binding]; other site 1094489000389 Q-loop/lid; other site 1094489000390 ABC transporter signature motif; other site 1094489000391 Walker B; other site 1094489000392 D-loop; other site 1094489000393 H-loop/switch region; other site 1094489000394 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1094489000395 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1094489000396 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1094489000397 putative NAD(P) binding site [chemical binding]; other site 1094489000398 preprotein translocase subunit SecB; Validated; Region: PRK05751 1094489000399 SecA binding site; other site 1094489000400 Preprotein binding site; other site 1094489000401 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 1094489000402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1094489000403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1094489000404 Smr domain; Region: Smr; pfam01713 1094489000405 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 1094489000406 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1094489000407 dimerization interface [polypeptide binding]; other site 1094489000408 domain crossover interface; other site 1094489000409 redox-dependent activation switch; other site 1094489000410 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 1094489000411 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 1094489000412 inhibitor-cofactor binding pocket; inhibition site 1094489000413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094489000414 catalytic residue [active] 1094489000415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 1094489000416 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 1094489000417 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1094489000418 catalytic residues [active] 1094489000419 central insert; other site 1094489000420 heme exporter protein CcmC; Region: ccmC; TIGR01191 1094489000421 heme exporter protein CcmB; Region: ccmB; TIGR01190 1094489000422 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1094489000423 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094489000424 Walker A/P-loop; other site 1094489000425 ATP binding site [chemical binding]; other site 1094489000426 Q-loop/lid; other site 1094489000427 ABC transporter signature motif; other site 1094489000428 Walker B; other site 1094489000429 D-loop; other site 1094489000430 H-loop/switch region; other site 1094489000431 aconitate hydratase; Validated; Region: PRK09277 1094489000432 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1094489000433 substrate binding site [chemical binding]; other site 1094489000434 ligand binding site [chemical binding]; other site 1094489000435 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 1094489000436 substrate binding site [chemical binding]; other site 1094489000437 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1094489000438 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1094489000439 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1094489000440 Bacterial dnaA protein; Region: Bac_DnaA; pfam00308 1094489000441 Walker A motif; other site 1094489000442 ATP binding site [chemical binding]; other site 1094489000443 Walker B motif; other site 1094489000444 arginine finger; other site 1094489000445 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 1094489000446 DnaA box-binding interface [nucleotide binding]; other site 1094489000447 DNA polymerase III subunit beta; Validated; Region: PRK05643 1094489000448 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 1094489000449 putative DNA binding surface [nucleotide binding]; other site 1094489000450 dimer interface [polypeptide binding]; other site 1094489000451 beta-clamp/clamp loader binding surface; other site 1094489000452 beta-clamp/translesion DNA polymerase binding surface; other site 1094489000453 recombination protein F; Reviewed; Region: recF; PRK00064 1094489000454 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094489000455 Walker A/P-loop; other site 1094489000456 ATP binding site [chemical binding]; other site 1094489000457 Q-loop/lid; other site 1094489000458 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094489000459 ABC transporter signature motif; other site 1094489000460 Walker B; other site 1094489000461 D-loop; other site 1094489000462 H-loop/switch region; other site 1094489000463 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1094489000464 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1094489000465 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1094489000466 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1094489000467 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 1094489000468 D-pathway; other site 1094489000469 Putative ubiquinol binding site [chemical binding]; other site 1094489000470 Low-spin heme (heme b) binding site [chemical binding]; other site 1094489000471 Putative water exit pathway; other site 1094489000472 Binuclear center (heme o3/CuB) [ion binding]; other site 1094489000473 K-pathway; other site 1094489000474 Putative proton exit pathway; other site 1094489000475 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 1094489000476 Subunit I/III interface [polypeptide binding]; other site 1094489000477 Subunit III/IV interface [polypeptide binding]; other site 1094489000478 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1094489000479 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 1094489000480 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1094489000481 NAD binding site [chemical binding]; other site 1094489000482 homotetramer interface [polypeptide binding]; other site 1094489000483 homodimer interface [polypeptide binding]; other site 1094489000484 substrate binding site [chemical binding]; other site 1094489000485 active site 1094489000486 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1094489000487 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 1094489000488 dimer interface [polypeptide binding]; other site 1094489000489 active site 1094489000490 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 1094489000491 active site 1 [active] 1094489000492 dimer interface [polypeptide binding]; other site 1094489000493 active site 2 [active] 1094489000494 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1094489000495 metal binding site 2 [ion binding]; metal-binding site 1094489000496 putative DNA binding helix; other site 1094489000497 metal binding site 1 [ion binding]; metal-binding site 1094489000498 dimer interface [polypeptide binding]; other site 1094489000499 structural Zn2+ binding site [ion binding]; other site 1094489000500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1094489000501 Bacterial SH3 domain; Region: SH3_4; pfam06347 1094489000502 Bacterial SH3 domain; Region: SH3_4; pfam06347 1094489000503 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1094489000504 NlpC/P60 family; Region: NLPC_P60; pfam00877 1094489000505 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 1094489000506 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 1094489000507 interface (dimer of trimers) [polypeptide binding]; other site 1094489000508 Substrate-binding/catalytic site; other site 1094489000509 Zn-binding sites [ion binding]; other site 1094489000510 pantothenate kinase; Provisional; Region: PRK05439 1094489000511 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 1094489000512 ATP-binding site [chemical binding]; other site 1094489000513 CoA-binding site [chemical binding]; other site 1094489000514 Mg2+-binding site [ion binding]; other site 1094489000515 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1094489000516 active site 1094489000517 homotetramer interface [polypeptide binding]; other site 1094489000518 homodimer interface [polypeptide binding]; other site 1094489000519 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 1094489000520 active site 1094489000521 HslU subunit interaction site [polypeptide binding]; other site 1094489000522 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1094489000523 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1094489000524 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 1094489000525 Walker A motif; other site 1094489000526 ATP binding site [chemical binding]; other site 1094489000527 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1094489000528 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1094489000529 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1094489000530 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 1094489000531 S-adenosylmethionine binding site [chemical binding]; other site 1094489000532 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1094489000533 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1094489000534 RNase E interface [polypeptide binding]; other site 1094489000535 trimer interface [polypeptide binding]; other site 1094489000536 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1094489000537 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1094489000538 RNase E interface [polypeptide binding]; other site 1094489000539 trimer interface [polypeptide binding]; other site 1094489000540 active site 1094489000541 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 1094489000542 putative nucleic acid binding region [nucleotide binding]; other site 1094489000543 G-X-X-G motif; other site 1094489000544 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 1094489000545 RNA binding site [nucleotide binding]; other site 1094489000546 domain interface; other site 1094489000547 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 1094489000548 16S/18S rRNA binding site [nucleotide binding]; other site 1094489000549 S13e-L30e interaction site [polypeptide binding]; other site 1094489000550 25S rRNA binding site [nucleotide binding]; other site 1094489000551 Transmembrane secretion effector; Region: MFS_3; pfam05977 1094489000552 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 1094489000553 putative substrate translocation pore; other site 1094489000554 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 1094489000555 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1094489000556 RNA binding site [nucleotide binding]; other site 1094489000557 active site 1094489000558 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1094489000559 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1094489000560 translation initiation factor IF-2; Validated; Region: infB; PRK05306 1094489000561 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1094489000562 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1094489000563 G1 box; other site 1094489000564 putative GEF interaction site [polypeptide binding]; other site 1094489000565 GTP/Mg2+ binding site [chemical binding]; other site 1094489000566 Switch I region; other site 1094489000567 G2 box; other site 1094489000568 G3 box; other site 1094489000569 Switch II region; other site 1094489000570 G4 box; other site 1094489000571 G5 box; other site 1094489000572 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 1094489000573 Translation-initiation factor 2; Region: IF-2; pfam11987 1094489000574 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 1094489000575 hypothetical protein; Provisional; Region: PRK09190 1094489000576 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 1094489000577 putative RNA binding cleft [nucleotide binding]; other site 1094489000578 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1094489000579 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1094489000580 NusA N-terminal domain; Region: NusA_N; pfam08529 1094489000581 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 1094489000582 RNA binding site [nucleotide binding]; other site 1094489000583 homodimer interface [polypeptide binding]; other site 1094489000584 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 1094489000585 G-X-X-G motif; other site 1094489000586 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 1094489000587 G-X-X-G motif; other site 1094489000588 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1094489000589 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1094489000590 Sm and related proteins; Region: Sm_like; cl00259 1094489000591 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1094489000592 putative oligomer interface [polypeptide binding]; other site 1094489000593 putative RNA binding site [nucleotide binding]; other site 1094489000594 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1094489000595 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1094489000596 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1094489000597 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1094489000598 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1094489000599 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094489000600 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 1094489000601 non-specific DNA binding site [nucleotide binding]; other site 1094489000602 salt bridge; other site 1094489000603 sequence-specific DNA binding site [nucleotide binding]; other site 1094489000604 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1094489000605 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1094489000606 putative active site [active] 1094489000607 catalytic triad [active] 1094489000608 putative dimer interface [polypeptide binding]; other site 1094489000609 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1094489000610 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 1094489000611 Transporter associated domain; Region: CorC_HlyC; smart01091 1094489000612 metal-binding heat shock protein; Provisional; Region: PRK00016 1094489000613 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1094489000614 PhoH-like protein; Region: PhoH; pfam02562 1094489000615 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1094489000616 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1094489000617 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 1094489000618 FeS/SAM binding site; other site 1094489000619 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1094489000620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1094489000621 Coenzyme A binding pocket [chemical binding]; other site 1094489000622 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1094489000623 Glycoprotease family; Region: Peptidase_M22; pfam00814 1094489000624 Predicted membrane protein [Function unknown]; Region: COG2855 1094489000625 recombination protein RecR; Reviewed; Region: recR; PRK00076 1094489000626 RecR protein; Region: RecR; pfam02132 1094489000627 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 1094489000628 putative active site [active] 1094489000629 putative metal-binding site [ion binding]; other site 1094489000630 tetramer interface [polypeptide binding]; other site 1094489000631 hypothetical protein; Validated; Region: PRK00153 1094489000632 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 1094489000633 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 1094489000634 Walker A motif; other site 1094489000635 ATP binding site [chemical binding]; other site 1094489000636 Walker B motif; other site 1094489000637 arginine finger; other site 1094489000638 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1094489000639 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 1094489000640 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1094489000641 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1094489000642 Ligand binding site; other site 1094489000643 oligomer interface; other site 1094489000644 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1094489000645 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1094489000646 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1094489000647 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 1094489000648 dimer interface [polypeptide binding]; other site 1094489000649 conserved gate region; other site 1094489000650 putative PBP binding loops; other site 1094489000651 ABC-ATPase subunit interface; other site 1094489000652 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1094489000653 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 1094489000654 dimer interface [polypeptide binding]; other site 1094489000655 conserved gate region; other site 1094489000656 putative PBP binding loops; other site 1094489000657 ABC-ATPase subunit interface; other site 1094489000658 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1094489000659 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1094489000660 Walker A/P-loop; other site 1094489000661 ATP binding site [chemical binding]; other site 1094489000662 Q-loop/lid; other site 1094489000663 ABC transporter signature motif; other site 1094489000664 Walker B; other site 1094489000665 D-loop; other site 1094489000666 H-loop/switch region; other site 1094489000667 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1094489000668 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1094489000669 Walker A/P-loop; other site 1094489000670 ATP binding site [chemical binding]; other site 1094489000671 Q-loop/lid; other site 1094489000672 ABC transporter signature motif; other site 1094489000673 Walker B; other site 1094489000674 D-loop; other site 1094489000675 H-loop/switch region; other site 1094489000676 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1094489000677 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 1094489000678 ATP binding site [chemical binding]; other site 1094489000679 substrate interface [chemical binding]; other site 1094489000680 glutathione synthetase; Provisional; Region: PRK05246 1094489000681 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1094489000682 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1094489000683 PBP superfamily domain; Region: PBP_like_2; pfam12849 1094489000684 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1094489000685 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1094489000686 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 1094489000687 dimer interface [polypeptide binding]; other site 1094489000688 conserved gate region; other site 1094489000689 putative PBP binding loops; other site 1094489000690 ABC-ATPase subunit interface; other site 1094489000691 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1094489000692 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1094489000693 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 1094489000694 dimer interface [polypeptide binding]; other site 1094489000695 conserved gate region; other site 1094489000696 putative PBP binding loops; other site 1094489000697 ABC-ATPase subunit interface; other site 1094489000698 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1094489000699 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1094489000700 Walker A/P-loop; other site 1094489000701 ATP binding site [chemical binding]; other site 1094489000702 Q-loop/lid; other site 1094489000703 ABC transporter signature motif; other site 1094489000704 Walker B; other site 1094489000705 D-loop; other site 1094489000706 H-loop/switch region; other site 1094489000707 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1094489000708 PhoU domain; Region: PhoU; pfam01895 1094489000709 PhoU domain; Region: PhoU; pfam01895 1094489000710 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1094489000711 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1094489000712 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1094489000713 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1094489000714 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1094489000715 DNA binding site [nucleotide binding] 1094489000716 catalytic residue [active] 1094489000717 H2TH interface [polypeptide binding]; other site 1094489000718 putative catalytic residues [active] 1094489000719 turnover-facilitating residue; other site 1094489000720 intercalation triad [nucleotide binding]; other site 1094489000721 8OG recognition residue [nucleotide binding]; other site 1094489000722 putative reading head residues; other site 1094489000723 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1094489000724 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1094489000725 hypothetical protein; Validated; Region: PRK09104 1094489000726 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 1094489000727 metal binding site [ion binding]; metal-binding site 1094489000728 putative dimer interface [polypeptide binding]; other site 1094489000729 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1094489000730 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1094489000731 catalytic site [active] 1094489000732 putative active site [active] 1094489000733 putative substrate binding site [chemical binding]; other site 1094489000734 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1094489000735 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094489000736 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094489000737 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094489000738 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094489000739 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1094489000740 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094489000741 active site 1094489000742 HIGH motif; other site 1094489000743 nucleotide binding site [chemical binding]; other site 1094489000744 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1094489000745 active site 1094489000746 KMSKS motif; other site 1094489000747 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1094489000748 tRNA binding surface [nucleotide binding]; other site 1094489000749 anticodon binding site; other site 1094489000750 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 1094489000751 nucleoside/Zn binding site; other site 1094489000752 dimer interface [polypeptide binding]; other site 1094489000753 catalytic motif [active] 1094489000754 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1094489000755 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 1094489000756 RNA binding surface [nucleotide binding]; other site 1094489000757 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1094489000758 active site 1094489000759 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1094489000760 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 1094489000761 S-adenosylmethionine binding site [chemical binding]; other site 1094489000762 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1094489000763 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1094489000764 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 1094489000765 active site 1094489000766 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 1094489000767 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1094489000768 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1094489000769 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1094489000770 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1094489000771 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; pfam09866 1094489000772 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1094489000773 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 1094489000774 ATP binding site [chemical binding]; other site 1094489000775 Mg2+ binding site [ion binding]; other site 1094489000776 G-X-G motif; other site 1094489000777 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 1094489000778 ATP binding site [chemical binding]; other site 1094489000779 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1094489000780 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 1094489000781 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 1094489000782 trimer interface [polypeptide binding]; other site 1094489000783 active site 1094489000784 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 1094489000785 trimer interface [polypeptide binding]; other site 1094489000786 active site 1094489000787 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1094489000788 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 1094489000789 phosphate binding site [ion binding]; other site 1094489000790 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1094489000791 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1094489000792 Walker A/P-loop; other site 1094489000793 ATP binding site [chemical binding]; other site 1094489000794 Q-loop/lid; other site 1094489000795 ABC transporter signature motif; other site 1094489000796 Walker B; other site 1094489000797 D-loop; other site 1094489000798 H-loop/switch region; other site 1094489000799 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1094489000800 BioY family; Region: BioY; pfam02632 1094489000801 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 1094489000802 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1094489000803 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1094489000804 catalytic residue [active] 1094489000805 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1094489000806 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 1094489000807 GDP-binding site [chemical binding]; other site 1094489000808 ACT binding site; other site 1094489000809 IMP binding site; other site 1094489000810 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1094489000811 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1094489000812 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1094489000813 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 1094489000814 DNA binding residues [nucleotide binding] 1094489000815 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1094489000816 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 1094489000817 RNA binding surface [nucleotide binding]; other site 1094489000818 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1094489000819 active site 1094489000820 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1094489000821 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1094489000822 NAD binding site [chemical binding]; other site 1094489000823 catalytic residues [active] 1094489000824 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1094489000825 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1094489000826 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1094489000827 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1094489000828 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1094489000829 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1094489000830 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 1094489000831 quinone interaction residues [chemical binding]; other site 1094489000832 active site 1094489000833 catalytic residues [active] 1094489000834 FMN binding site [chemical binding]; other site 1094489000835 substrate binding site [chemical binding]; other site 1094489000836 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1094489000837 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1094489000838 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1094489000839 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1094489000840 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1094489000841 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1094489000842 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1094489000843 homodimer interface [polypeptide binding]; other site 1094489000844 NADP binding site [chemical binding]; other site 1094489000845 substrate binding site [chemical binding]; other site 1094489000846 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 1094489000847 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 1094489000848 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1094489000849 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 1094489000850 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 1094489000851 active site 1094489000852 catalytic residues [active] 1094489000853 DNA binding site [nucleotide binding] 1094489000854 Int/Topo IB signature motif; other site 1094489000855 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1094489000856 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 1094489000857 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1094489000858 Walker A motif; other site 1094489000859 ATP binding site [chemical binding]; other site 1094489000860 Walker B motif; other site 1094489000861 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 1094489000862 Catalytic site [active] 1094489000863 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1094489000864 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 1094489000865 non-specific DNA binding site [nucleotide binding]; other site 1094489000866 salt bridge; other site 1094489000867 sequence-specific DNA binding site [nucleotide binding]; other site 1094489000868 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 1094489000869 Catalytic site [active] 1094489000870 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 1094489000871 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094489000872 non-specific DNA binding site [nucleotide binding]; other site 1094489000873 salt bridge; other site 1094489000874 sequence-specific DNA binding site [nucleotide binding]; other site 1094489000875 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 1094489000876 putative trimer interface [polypeptide binding]; other site 1094489000877 putative CoA binding site [chemical binding]; other site 1094489000878 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 1094489000879 putative trimer interface [polypeptide binding]; other site 1094489000880 putative CoA binding site [chemical binding]; other site 1094489000881 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1094489000882 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1094489000883 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 1094489000884 dimer interface [polypeptide binding]; other site 1094489000885 ssDNA binding site [nucleotide binding]; other site 1094489000886 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094489000887 Predicted transcriptional regulator [Transcription]; Region: COG2944 1094489000888 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 1094489000889 non-specific DNA binding site [nucleotide binding]; other site 1094489000890 salt bridge; other site 1094489000891 sequence-specific DNA binding site [nucleotide binding]; other site 1094489000892 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1094489000893 RelB antitoxin; Region: RelB; cl01171 1094489000894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1094489000895 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1094489000896 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 1094489000897 non-specific DNA binding site [nucleotide binding]; other site 1094489000898 salt bridge; other site 1094489000899 sequence-specific DNA binding site [nucleotide binding]; other site 1094489000900 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1094489000901 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1094489000902 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1094489000903 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1094489000904 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1094489000905 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1094489000906 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1094489000907 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094489000908 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094489000909 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 1094489000910 non-specific DNA binding site [nucleotide binding]; other site 1094489000911 salt bridge; other site 1094489000912 sequence-specific DNA binding site [nucleotide binding]; other site 1094489000913 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 1094489000914 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 1094489000915 catalytic residues [active] 1094489000916 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 1094489000917 S-adenosylmethionine binding site [chemical binding]; other site 1094489000918 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1094489000919 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1094489000920 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 1094489000921 non-specific DNA binding site [nucleotide binding]; other site 1094489000922 salt bridge; other site 1094489000923 sequence-specific DNA binding site [nucleotide binding]; other site 1094489000924 AntA/AntB antirepressor; Region: AntA; cl01430 1094489000925 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1094489000926 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1094489000927 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1094489000928 HlyD family secretion protein; Region: HlyD_3; pfam13437 1094489000929 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1094489000930 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1094489000931 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1094489000932 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1094489000933 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489000934 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094489000935 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489000936 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 1094489000937 Walker A motif; other site 1094489000938 ATP binding site [chemical binding]; other site 1094489000939 Walker B motif; other site 1094489000940 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1094489000941 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1094489000942 Ligand Binding Site [chemical binding]; other site 1094489000943 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489000944 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489000945 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 1094489000946 active site 1094489000947 dimer interface [polypeptide binding]; other site 1094489000948 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1094489000949 trimer interface [polypeptide binding]; other site 1094489000950 Haemagglutinin; Region: HIM; pfam05662 1094489000951 Haemagglutinin; Region: HIM; pfam05662 1094489000952 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1094489000953 Haemagglutinin; Region: HIM; pfam05662 1094489000954 YadA-like C-terminal region; Region: YadA; pfam03895 1094489000955 YadA-like C-terminal region; Region: YadA; pfam03895 1094489000956 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1094489000957 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1094489000958 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 1094489000959 S-adenosylmethionine binding site [chemical binding]; other site 1094489000960 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1094489000961 GTP1/OBG; Region: GTP1_OBG; pfam01018 1094489000962 Obg GTPase; Region: Obg; cd01898 1094489000963 G1 box; other site 1094489000964 GTP/Mg2+ binding site [chemical binding]; other site 1094489000965 Switch I region; other site 1094489000966 G2 box; other site 1094489000967 G3 box; other site 1094489000968 Switch II region; other site 1094489000969 G4 box; other site 1094489000970 G5 box; other site 1094489000971 gamma-glutamyl kinase; Provisional; Region: PRK05429 1094489000972 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 1094489000973 nucleotide binding site [chemical binding]; other site 1094489000974 homotetrameric interface [polypeptide binding]; other site 1094489000975 putative phosphate binding site [ion binding]; other site 1094489000976 putative allosteric binding site; other site 1094489000977 PUA domain; Region: PUA; pfam01472 1094489000978 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1094489000979 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1094489000980 putative catalytic cysteine [active] 1094489000981 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1094489000982 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1094489000983 active site 1094489000984 (T/H)XGH motif; other site 1094489000985 Oligomerisation domain; Region: Oligomerisation; pfam02410 1094489000986 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1094489000987 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1094489000988 Peptidase family M23; Region: Peptidase_M23; pfam01551 1094489000989 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1094489000990 C-terminal peptidase (prc); Region: prc; TIGR00225 1094489000991 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 1094489000992 protein binding site [polypeptide binding]; other site 1094489000993 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1094489000994 Catalytic dyad [active] 1094489000995 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 1094489000996 putative active site [active] 1094489000997 Ap4A binding site [chemical binding]; other site 1094489000998 nudix motif; other site 1094489000999 putative metal binding site [ion binding]; other site 1094489001000 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1094489001001 YGGT family; Region: YGGT; pfam02325 1094489001002 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 1094489001003 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 1094489001004 dimer interface [polypeptide binding]; other site 1094489001005 substrate binding site [chemical binding]; other site 1094489001006 metal binding sites [ion binding]; metal-binding site 1094489001007 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1094489001008 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1094489001009 G1 box; other site 1094489001010 putative GEF interaction site [polypeptide binding]; other site 1094489001011 GTP/Mg2+ binding site [chemical binding]; other site 1094489001012 Switch I region; other site 1094489001013 G2 box; other site 1094489001014 G3 box; other site 1094489001015 Switch II region; other site 1094489001016 G4 box; other site 1094489001017 G5 box; other site 1094489001018 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 1094489001019 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 1094489001020 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1094489001021 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1094489001022 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 1094489001023 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 1094489001024 Divalent cation transporter; Region: MgtE; pfam01769 1094489001025 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1094489001026 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1094489001027 active site 1094489001028 Zn binding site [ion binding]; other site 1094489001029 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 1094489001030 active site 1094489001031 catalytic triad [active] 1094489001032 oxyanion hole [active] 1094489001033 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1094489001034 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 1094489001035 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1094489001036 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1094489001037 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1094489001038 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 1094489001039 putative active site [active] 1094489001040 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 1094489001041 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1094489001042 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 1094489001043 active site 1094489001044 phosphorylation site [posttranslational modification] 1094489001045 intermolecular recognition site; other site 1094489001046 dimerization interface [polypeptide binding]; other site 1094489001047 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 1094489001048 Walker A motif; other site 1094489001049 ATP binding site [chemical binding]; other site 1094489001050 Walker B motif; other site 1094489001051 arginine finger; other site 1094489001052 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1094489001053 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1094489001054 PLD-like domain; Region: PLDc_2; pfam13091 1094489001055 putative active site [active] 1094489001056 catalytic site [active] 1094489001057 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1094489001058 PLD-like domain; Region: PLDc_2; pfam13091 1094489001059 putative active site [active] 1094489001060 catalytic site [active] 1094489001061 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1094489001062 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 1094489001063 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 1094489001064 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 1094489001065 active site 1094489001066 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1094489001067 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1094489001068 GMP synthase; Reviewed; Region: guaA; PRK00074 1094489001069 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1094489001070 AMP/PPi binding site [chemical binding]; other site 1094489001071 candidate oxyanion hole; other site 1094489001072 catalytic triad [active] 1094489001073 potential glutamine specificity residues [chemical binding]; other site 1094489001074 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 1094489001075 ATP Binding subdomain [chemical binding]; other site 1094489001076 Ligand Binding sites [chemical binding]; other site 1094489001077 Dimerization subdomain; other site 1094489001078 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1094489001079 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1094489001080 active site 1094489001081 catalytic site [active] 1094489001082 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1094489001083 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1094489001084 Walker A/P-loop; other site 1094489001085 ATP binding site [chemical binding]; other site 1094489001086 Q-loop/lid; other site 1094489001087 ABC transporter signature motif; other site 1094489001088 Walker B; other site 1094489001089 D-loop; other site 1094489001090 H-loop/switch region; other site 1094489001091 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1094489001092 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 1094489001093 dimer interface [polypeptide binding]; other site 1094489001094 conserved gate region; other site 1094489001095 putative PBP binding loops; other site 1094489001096 ABC-ATPase subunit interface; other site 1094489001097 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 1094489001098 dimer interface [polypeptide binding]; other site 1094489001099 conserved gate region; other site 1094489001100 putative PBP binding loops; other site 1094489001101 ABC-ATPase subunit interface; other site 1094489001102 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1094489001103 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1094489001104 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1094489001105 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 1094489001106 ABC-ATPase subunit interface; other site 1094489001107 dimer interface [polypeptide binding]; other site 1094489001108 putative PBP binding regions; other site 1094489001109 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1094489001110 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1094489001111 intersubunit interface [polypeptide binding]; other site 1094489001112 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1094489001113 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1094489001114 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 1094489001115 catalytic residues [active] 1094489001116 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1094489001117 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1094489001118 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1094489001119 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1094489001120 active site 1094489001121 dimer interface [polypeptide binding]; other site 1094489001122 catalytic residues [active] 1094489001123 effector binding site; other site 1094489001124 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1094489001125 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1094489001126 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1094489001127 dimer interface [polypeptide binding]; other site 1094489001128 putative radical transfer pathway; other site 1094489001129 diiron center [ion binding]; other site 1094489001130 tyrosyl radical; other site 1094489001131 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1094489001132 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 1094489001133 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 1094489001134 S-adenosylmethionine binding site [chemical binding]; other site 1094489001135 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1094489001136 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1094489001137 RF-1 domain; Region: RF-1; pfam00472 1094489001138 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1094489001139 metal binding site 2 [ion binding]; metal-binding site 1094489001140 putative DNA binding helix; other site 1094489001141 metal binding site 1 [ion binding]; metal-binding site 1094489001142 dimer interface [polypeptide binding]; other site 1094489001143 structural Zn2+ binding site [ion binding]; other site 1094489001144 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1094489001145 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1094489001146 SEC-C motif; Region: SEC-C; pfam02810 1094489001147 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 1094489001148 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 1094489001149 heterotetramer interface [polypeptide binding]; other site 1094489001150 active site pocket [active] 1094489001151 cleavage site 1094489001152 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 1094489001153 active site 1094489001154 8-oxo-dGMP binding site [chemical binding]; other site 1094489001155 nudix motif; other site 1094489001156 metal binding site [ion binding]; metal-binding site 1094489001157 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1094489001158 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1094489001159 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1094489001160 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1094489001161 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1094489001162 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 1094489001163 GSH binding site [chemical binding]; other site 1094489001164 catalytic residues [active] 1094489001165 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1094489001166 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 1094489001167 S-adenosylmethionine binding site [chemical binding]; other site 1094489001168 aspartate kinase; Reviewed; Region: PRK06635 1094489001169 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 1094489001170 putative nucleotide binding site [chemical binding]; other site 1094489001171 putative catalytic residues [active] 1094489001172 putative Mg ion binding site [ion binding]; other site 1094489001173 putative aspartate binding site [chemical binding]; other site 1094489001174 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 1094489001175 putative allosteric regulatory site; other site 1094489001176 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 1094489001177 putative allosteric regulatory residue; other site 1094489001178 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1094489001179 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 1094489001180 transmembrane helices; other site 1094489001181 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1094489001182 TrkA-C domain; Region: TrkA_C; pfam02080 1094489001183 TrkA-C domain; Region: TrkA_C; pfam02080 1094489001184 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 1094489001185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1094489001186 GTP-binding protein Der; Reviewed; Region: PRK00093 1094489001187 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1094489001188 G1 box; other site 1094489001189 GTP/Mg2+ binding site [chemical binding]; other site 1094489001190 Switch I region; other site 1094489001191 G2 box; other site 1094489001192 Switch II region; other site 1094489001193 G3 box; other site 1094489001194 G4 box; other site 1094489001195 G5 box; other site 1094489001196 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1094489001197 G1 box; other site 1094489001198 GTP/Mg2+ binding site [chemical binding]; other site 1094489001199 Switch I region; other site 1094489001200 G2 box; other site 1094489001201 G3 box; other site 1094489001202 Switch II region; other site 1094489001203 G4 box; other site 1094489001204 G5 box; other site 1094489001205 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 1094489001206 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1094489001207 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1094489001208 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1094489001209 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 1094489001210 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1094489001211 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 1094489001212 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1094489001213 DALR anticodon binding domain; Region: DALR_1; pfam05746 1094489001214 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 1094489001215 dimer interface [polypeptide binding]; other site 1094489001216 motif 1; other site 1094489001217 active site 1094489001218 motif 2; other site 1094489001219 motif 3; other site 1094489001220 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 1094489001221 binding surface 1094489001222 TPR motif; other site 1094489001223 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 1094489001224 TPR motif; other site 1094489001225 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1094489001226 binding surface 1094489001227 TPR repeat; Region: TPR_11; pfam13414 1094489001228 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 1094489001229 TPR motif; other site 1094489001230 binding surface 1094489001231 TPR repeat; Region: TPR_11; pfam13414 1094489001232 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 1094489001233 binding surface 1094489001234 TPR motif; other site 1094489001235 TPR repeat; Region: TPR_11; pfam13414 1094489001236 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1094489001237 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1094489001238 substrate binding pocket [chemical binding]; other site 1094489001239 chain length determination region; other site 1094489001240 substrate-Mg2+ binding site; other site 1094489001241 catalytic residues [active] 1094489001242 aspartate-rich region 1; other site 1094489001243 active site lid residues [active] 1094489001244 aspartate-rich region 2; other site 1094489001245 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1094489001246 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 1094489001247 S-adenosylmethionine binding site [chemical binding]; other site 1094489001248 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1094489001249 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1094489001250 tandem repeat interface [polypeptide binding]; other site 1094489001251 oligomer interface [polypeptide binding]; other site 1094489001252 active site residues [active] 1094489001253 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 1094489001254 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1094489001255 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1094489001256 RNA/DNA hybrid binding site [nucleotide binding]; other site 1094489001257 active site 1094489001258 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1094489001259 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1094489001260 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1094489001261 FAD binding domain; Region: FAD_binding_4; pfam01565 1094489001262 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1094489001263 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1094489001264 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1094489001265 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1094489001266 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 1094489001267 UbiA prenyltransferase family; Region: UbiA; pfam01040 1094489001268 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1094489001269 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1094489001270 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1094489001271 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1094489001272 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 1094489001273 HSP70 interaction site [polypeptide binding]; other site 1094489001274 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1094489001275 dimer interface [polypeptide binding]; other site 1094489001276 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 1094489001277 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1094489001278 NAD binding site [chemical binding]; other site 1094489001279 homotetramer interface [polypeptide binding]; other site 1094489001280 homodimer interface [polypeptide binding]; other site 1094489001281 substrate binding site [chemical binding]; other site 1094489001282 active site 1094489001283 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1094489001284 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1094489001285 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 1094489001286 dimerization interface [polypeptide binding]; other site 1094489001287 active site 1094489001288 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1094489001289 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1094489001290 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 1094489001291 TPP-binding site; other site 1094489001292 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 1094489001293 PYR/PP interface [polypeptide binding]; other site 1094489001294 dimer interface [polypeptide binding]; other site 1094489001295 TPP binding site [chemical binding]; other site 1094489001296 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1094489001297 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1094489001298 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 1094489001299 RNA binding surface [nucleotide binding]; other site 1094489001300 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 1094489001301 S-adenosylmethionine binding site [chemical binding]; other site 1094489001302 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1094489001303 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1094489001304 protease TldD; Provisional; Region: tldD; PRK10735 1094489001305 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1094489001306 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1094489001307 UbiA prenyltransferase family; Region: UbiA; pfam01040 1094489001308 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1094489001309 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1094489001310 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1094489001311 RNA/DNA hybrid binding site [nucleotide binding]; other site 1094489001312 active site 1094489001313 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1094489001314 hypothetical protein; Validated; Region: PRK00228 1094489001315 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1094489001316 PAS fold; Region: PAS_3; pfam08447 1094489001317 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1094489001318 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1094489001319 metal binding site [ion binding]; metal-binding site 1094489001320 active site 1094489001321 I-site; other site 1094489001322 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 1094489001323 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1094489001324 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1094489001325 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1094489001326 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1094489001327 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 1094489001328 motif II; other site 1094489001329 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1094489001330 DNA methylase; Region: N6_N4_Mtase; pfam01555 1094489001331 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1094489001332 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1094489001333 minor groove reading motif; other site 1094489001334 helix-hairpin-helix signature motif; other site 1094489001335 substrate binding pocket [chemical binding]; other site 1094489001336 active site 1094489001337 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1094489001338 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 1094489001339 DNA binding and oxoG recognition site [nucleotide binding] 1094489001340 Protein of unknown function (DUF721); Region: DUF721; cl02324 1094489001341 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1094489001342 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 1094489001343 catalytic residues [active] 1094489001344 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1094489001345 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1094489001346 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1094489001347 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1094489001348 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1094489001349 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1094489001350 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1094489001351 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1094489001352 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1094489001353 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1094489001354 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1094489001355 Predicted transcriptional regulator [Transcription]; Region: COG4957 1094489001356 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1094489001357 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1094489001358 Predicted integral membrane protein [Function unknown]; Region: COG5436 1094489001359 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1094489001360 Transglycosylase; Region: Transgly; pfam00912 1094489001361 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1094489001362 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1094489001363 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1094489001364 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 1094489001365 active site 1094489001366 phosphorylation site [posttranslational modification] 1094489001367 intermolecular recognition site; other site 1094489001368 dimerization interface [polypeptide binding]; other site 1094489001369 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 1094489001370 DNA binding site [nucleotide binding] 1094489001371 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1094489001372 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 1094489001373 ATP binding site [chemical binding]; other site 1094489001374 Mg2+ binding site [ion binding]; other site 1094489001375 G-X-G motif; other site 1094489001376 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1094489001377 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 1094489001378 TPR motif; other site 1094489001379 binding surface 1094489001380 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1094489001381 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1094489001382 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1094489001383 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1094489001384 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 1094489001385 protein binding site [polypeptide binding]; other site 1094489001386 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 1094489001387 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1094489001388 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 1094489001389 active site 1094489001390 phosphorylation site [posttranslational modification] 1094489001391 intermolecular recognition site; other site 1094489001392 dimerization interface [polypeptide binding]; other site 1094489001393 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 1094489001394 DNA binding site [nucleotide binding] 1094489001395 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1094489001396 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 1094489001397 dimerization interface [polypeptide binding]; other site 1094489001398 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 1094489001399 dimer interface [polypeptide binding]; other site 1094489001400 phosphorylation site [posttranslational modification] 1094489001401 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 1094489001402 ATP binding site [chemical binding]; other site 1094489001403 Mg2+ binding site [ion binding]; other site 1094489001404 G-X-G motif; other site 1094489001405 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094489001406 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094489001407 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1094489001408 PAS fold; Region: PAS_3; pfam08447 1094489001409 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 1094489001410 putative active site [active] 1094489001411 heme pocket [chemical binding]; other site 1094489001412 PAS fold; Region: PAS_7; pfam12860 1094489001413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1094489001414 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 1094489001415 dimer interface [polypeptide binding]; other site 1094489001416 phosphorylation site [posttranslational modification] 1094489001417 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 1094489001418 ATP binding site [chemical binding]; other site 1094489001419 Mg2+ binding site [ion binding]; other site 1094489001420 G-X-G motif; other site 1094489001421 aminopeptidase N; Provisional; Region: pepN; PRK14015 1094489001422 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1094489001423 active site 1094489001424 Zn binding site [ion binding]; other site 1094489001425 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1094489001426 Fe-S cluster binding site [ion binding]; other site 1094489001427 active site 1094489001428 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 1094489001429 substrate binding site [chemical binding]; other site 1094489001430 dimer interface [polypeptide binding]; other site 1094489001431 ATP binding site [chemical binding]; other site 1094489001432 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 1094489001433 thiamine phosphate binding site [chemical binding]; other site 1094489001434 active site 1094489001435 pyrophosphate binding site [ion binding]; other site 1094489001436 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 1094489001437 ThiS interaction site; other site 1094489001438 putative active site [active] 1094489001439 tetramer interface [polypeptide binding]; other site 1094489001440 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1094489001441 thiS-thiF/thiG interaction site; other site 1094489001442 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1094489001443 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1094489001444 ThiC-associated domain; Region: ThiC-associated; pfam13667 1094489001445 ThiC family; Region: ThiC; pfam01964 1094489001446 Porin subfamily; Region: Porin_2; pfam02530 1094489001447 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489001448 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489001449 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489001450 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489001451 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489001452 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489001453 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489001454 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489001455 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489001456 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1094489001457 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1094489001458 Walker A/P-loop; other site 1094489001459 ATP binding site [chemical binding]; other site 1094489001460 Q-loop/lid; other site 1094489001461 ABC transporter signature motif; other site 1094489001462 Walker B; other site 1094489001463 D-loop; other site 1094489001464 H-loop/switch region; other site 1094489001465 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1094489001466 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 1094489001467 ABC-ATPase subunit interface; other site 1094489001468 dimer interface [polypeptide binding]; other site 1094489001469 putative PBP binding regions; other site 1094489001470 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1094489001471 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 1094489001472 putative hemin binding site; other site 1094489001473 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1094489001474 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1094489001475 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1094489001476 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1094489001477 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 1094489001478 N-terminal plug; other site 1094489001479 ligand-binding site [chemical binding]; other site 1094489001480 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1094489001481 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1094489001482 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 1094489001483 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1094489001484 catalytic residue [active] 1094489001485 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1094489001486 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1094489001487 dimer interface [polypeptide binding]; other site 1094489001488 active site 1094489001489 catalytic residue [active] 1094489001490 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 1094489001491 SmpB-tmRNA interface; other site 1094489001492 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1094489001493 ligand binding site [chemical binding]; other site 1094489001494 active site 1094489001495 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1094489001496 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1094489001497 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1094489001498 Zn2+ binding site [ion binding]; other site 1094489001499 Mg2+ binding site [ion binding]; other site 1094489001500 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1094489001501 synthetase active site [active] 1094489001502 NTP binding site [chemical binding]; other site 1094489001503 metal binding site [ion binding]; metal-binding site 1094489001504 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 1094489001505 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1094489001506 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1094489001507 active site 1094489001508 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1094489001509 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1094489001510 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1094489001511 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 1094489001512 Catalytic site [active] 1094489001513 ribonuclease III; Reviewed; Region: PRK12371 1094489001514 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 1094489001515 dimerization interface [polypeptide binding]; other site 1094489001516 active site 1094489001517 metal binding site [ion binding]; metal-binding site 1094489001518 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 1094489001519 dsRNA binding site [nucleotide binding]; other site 1094489001520 GTPase Era; Reviewed; Region: era; PRK00089 1094489001521 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1094489001522 G1 box; other site 1094489001523 GTP/Mg2+ binding site [chemical binding]; other site 1094489001524 Switch I region; other site 1094489001525 G2 box; other site 1094489001526 Switch II region; other site 1094489001527 G3 box; other site 1094489001528 G4 box; other site 1094489001529 G5 box; other site 1094489001530 KH domain; Region: KH_2; pfam07650 1094489001531 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1094489001532 Recombination protein O N terminal; Region: RecO_N; pfam11967 1094489001533 Recombination protein O C terminal; Region: RecO_C; pfam02565 1094489001534 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1094489001535 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1094489001536 active site 1094489001537 ATP-binding site [chemical binding]; other site 1094489001538 pantoate-binding site; other site 1094489001539 HXXH motif; other site 1094489001540 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 1094489001541 active site 1094489001542 oligomerization interface [polypeptide binding]; other site 1094489001543 metal binding site [ion binding]; metal-binding site 1094489001544 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1094489001545 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1094489001546 dihydroorotase; Validated; Region: PRK09060 1094489001547 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 1094489001548 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 1094489001549 active site 1094489001550 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 1094489001551 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1094489001552 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094489001553 active site 1094489001554 HIGH motif; other site 1094489001555 nucleotide binding site [chemical binding]; other site 1094489001556 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1094489001557 KMSKS motif; other site 1094489001558 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1094489001559 Predicted membrane protein [Function unknown]; Region: COG2323 1094489001560 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1094489001561 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1094489001562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094489001563 Walker A/P-loop; other site 1094489001564 ATP binding site [chemical binding]; other site 1094489001565 Q-loop/lid; other site 1094489001566 ABC transporter signature motif; other site 1094489001567 Walker B; other site 1094489001568 D-loop; other site 1094489001569 H-loop/switch region; other site 1094489001570 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1094489001571 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1094489001572 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1094489001573 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1094489001574 classical (c) SDRs; Region: SDR_c; cd05233 1094489001575 NAD(P) binding site [chemical binding]; other site 1094489001576 active site 1094489001577 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1094489001578 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 1094489001579 active site 1094489001580 tetramer interface [polypeptide binding]; other site 1094489001581 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1094489001582 active site 1094489001583 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1094489001584 Colicin V production protein; Region: Colicin_V; pfam02674 1094489001585 DNA repair protein RadA; Provisional; Region: PRK11823 1094489001586 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 1094489001587 Walker A motif/ATP binding site; other site 1094489001588 ATP binding site [chemical binding]; other site 1094489001589 Walker B motif; other site 1094489001590 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1094489001591 replicative DNA helicase; Provisional; Region: PRK09165 1094489001592 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1094489001593 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 1094489001594 Walker A motif; other site 1094489001595 ATP binding site [chemical binding]; other site 1094489001596 Walker B motif; other site 1094489001597 DNA binding loops [nucleotide binding] 1094489001598 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1094489001599 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1094489001600 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1094489001601 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1094489001602 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1094489001603 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 1094489001604 active site 1094489001605 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1094489001606 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1094489001607 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1094489001608 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1094489001609 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1094489001610 NAD(P) binding site [chemical binding]; other site 1094489001611 homotetramer interface [polypeptide binding]; other site 1094489001612 homodimer interface [polypeptide binding]; other site 1094489001613 active site 1094489001614 acyl carrier protein; Provisional; Region: acpP; PRK00982 1094489001615 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1094489001616 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 1094489001617 dimer interface [polypeptide binding]; other site 1094489001618 active site 1094489001619 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1094489001620 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1094489001621 dimerization interface [polypeptide binding]; other site 1094489001622 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1094489001623 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 1094489001624 catalytic site [active] 1094489001625 G-X2-G-X-G-K; other site 1094489001626 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1094489001627 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 1094489001628 S-adenosylmethionine binding site [chemical binding]; other site 1094489001629 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 1094489001630 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1094489001631 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1094489001632 SurA N-terminal domain; Region: SurA_N; pfam09312 1094489001633 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1094489001634 OstA-like protein; Region: OstA; cl00844 1094489001635 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1094489001636 Predicted permeases [General function prediction only]; Region: COG0795 1094489001637 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1094489001638 Predicted permeases [General function prediction only]; Region: COG0795 1094489001639 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1094489001640 DNA polymerase III subunit chi; Validated; Region: PRK05728 1094489001641 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 1094489001642 metabolite-proton symporter; Region: 2A0106; TIGR00883 1094489001643 putative substrate translocation pore; other site 1094489001644 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 1094489001645 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094489001646 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094489001647 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 1094489001648 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 1094489001649 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 1094489001650 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 1094489001651 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094489001652 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1094489001653 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094489001654 Walker A/P-loop; other site 1094489001655 ATP binding site [chemical binding]; other site 1094489001656 Q-loop/lid; other site 1094489001657 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094489001658 ABC transporter signature motif; other site 1094489001659 Walker B; other site 1094489001660 D-loop; other site 1094489001661 ABC transporter; Region: ABC_tran_2; pfam12848 1094489001662 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094489001663 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 1094489001664 active site 1094489001665 multimer interface [polypeptide binding]; other site 1094489001666 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1094489001667 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1094489001668 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1094489001669 GIY-YIG motif/motif A; other site 1094489001670 active site 1094489001671 catalytic site [active] 1094489001672 putative DNA binding site [nucleotide binding]; other site 1094489001673 metal binding site [ion binding]; metal-binding site 1094489001674 UvrB/uvrC motif; Region: UVR; pfam02151 1094489001675 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1094489001676 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1094489001677 seryl-tRNA synthetase; Provisional; Region: PRK05431 1094489001678 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1094489001679 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 1094489001680 dimer interface [polypeptide binding]; other site 1094489001681 active site 1094489001682 motif 1; other site 1094489001683 motif 2; other site 1094489001684 motif 3; other site 1094489001685 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1094489001686 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 1094489001687 S-adenosylmethionine binding site [chemical binding]; other site 1094489001688 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1094489001689 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1094489001690 Peptidase family M23; Region: Peptidase_M23; pfam01551 1094489001691 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 1094489001692 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 1094489001693 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 1094489001694 substrate binding pocket [chemical binding]; other site 1094489001695 substrate-Mg2+ binding site; other site 1094489001696 aspartate-rich region 2; other site 1094489001697 SurA N-terminal domain; Region: SurA_N_3; cl07813 1094489001698 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1094489001699 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 1094489001700 triosephosphate isomerase; Provisional; Region: PRK14565 1094489001701 substrate binding site [chemical binding]; other site 1094489001702 dimer interface [polypeptide binding]; other site 1094489001703 catalytic triad [active] 1094489001704 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1094489001705 CTP synthetase; Validated; Region: pyrG; PRK05380 1094489001706 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 1094489001707 Catalytic site [active] 1094489001708 active site 1094489001709 UTP binding site [chemical binding]; other site 1094489001710 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1094489001711 active site 1094489001712 putative oxyanion hole; other site 1094489001713 catalytic triad [active] 1094489001714 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1094489001715 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1094489001716 enolase; Provisional; Region: eno; PRK00077 1094489001717 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 1094489001718 dimer interface [polypeptide binding]; other site 1094489001719 metal binding site [ion binding]; metal-binding site 1094489001720 substrate binding pocket [chemical binding]; other site 1094489001721 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 1094489001722 RNA binding site [nucleotide binding]; other site 1094489001723 TM2 domain; Region: TM2; pfam05154 1094489001724 TM2 domain; Region: TM2; pfam05154 1094489001725 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1094489001726 Septum formation initiator; Region: DivIC; pfam04977 1094489001727 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1094489001728 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 1094489001729 tetramer interface [polypeptide binding]; other site 1094489001730 TPP-binding site [chemical binding]; other site 1094489001731 heterodimer interface [polypeptide binding]; other site 1094489001732 phosphorylation loop region [posttranslational modification] 1094489001733 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 1094489001734 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 1094489001735 E3 interaction surface; other site 1094489001736 lipoyl attachment site [posttranslational modification]; other site 1094489001737 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 1094489001738 alpha subunit interface [polypeptide binding]; other site 1094489001739 TPP binding site [chemical binding]; other site 1094489001740 heterodimer interface [polypeptide binding]; other site 1094489001741 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1094489001742 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 1094489001743 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1094489001744 E3 interaction surface; other site 1094489001745 lipoyl attachment site [posttranslational modification]; other site 1094489001746 e3 binding domain; Region: E3_binding; pfam02817 1094489001747 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1094489001748 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1094489001749 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1094489001750 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1094489001751 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1094489001752 lipoyl synthase; Provisional; Region: PRK05481 1094489001753 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 1094489001754 FeS/SAM binding site; other site 1094489001755 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1094489001756 putative coenzyme Q binding site [chemical binding]; other site 1094489001757 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1094489001758 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1094489001759 substrate binding site; other site 1094489001760 dimer interface; other site 1094489001761 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 1094489001762 homotrimer interaction site [polypeptide binding]; other site 1094489001763 zinc binding site [ion binding]; other site 1094489001764 CDP-binding sites; other site 1094489001765 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 1094489001766 Rrf2 family protein; Region: rrf2_super; TIGR00738 1094489001767 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1094489001768 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 1094489001769 dimerization interface [polypeptide binding]; other site 1094489001770 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 1094489001771 dimer interface [polypeptide binding]; other site 1094489001772 phosphorylation site [posttranslational modification] 1094489001773 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 1094489001774 ATP binding site [chemical binding]; other site 1094489001775 Mg2+ binding site [ion binding]; other site 1094489001776 G-X-G motif; other site 1094489001777 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1094489001778 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 1094489001779 active site 1094489001780 phosphorylation site [posttranslational modification] 1094489001781 intermolecular recognition site; other site 1094489001782 dimerization interface [polypeptide binding]; other site 1094489001783 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 1094489001784 Walker A motif; other site 1094489001785 ATP binding site [chemical binding]; other site 1094489001786 Walker B motif; other site 1094489001787 arginine finger; other site 1094489001788 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1094489001789 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1094489001790 TrkA-N domain; Region: TrkA_N; pfam02254 1094489001791 TrkA-C domain; Region: TrkA_C; pfam02080 1094489001792 TrkA-N domain; Region: TrkA_N; pfam02254 1094489001793 TrkA-C domain; Region: TrkA_C; pfam02080 1094489001794 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1094489001795 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1094489001796 oligomer interface [polypeptide binding]; other site 1094489001797 active site residues [active] 1094489001798 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1094489001799 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1094489001800 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 1094489001801 Walker A motif; other site 1094489001802 ATP binding site [chemical binding]; other site 1094489001803 Walker B motif; other site 1094489001804 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1094489001805 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1094489001806 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1094489001807 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1094489001808 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 1094489001809 Walker A motif; other site 1094489001810 ATP binding site [chemical binding]; other site 1094489001811 Walker B motif; other site 1094489001812 arginine finger; other site 1094489001813 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1094489001814 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 1094489001815 IHF dimer interface [polypeptide binding]; other site 1094489001816 IHF - DNA interface [nucleotide binding]; other site 1094489001817 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1094489001818 Glucose inhibited division protein A; Region: GIDA; pfam01134 1094489001819 trigger factor; Provisional; Region: tig; PRK01490 1094489001820 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1094489001821 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1094489001822 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1094489001823 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1094489001824 GatB domain; Region: GatB_Yqey; smart00845 1094489001825 NADH dehydrogenase; Validated; Region: PRK08183 1094489001826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1094489001827 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1094489001828 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1094489001829 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1094489001830 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1094489001831 elongation factor Tu; Reviewed; Region: PRK00049 1094489001832 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1094489001833 G1 box; other site 1094489001834 GEF interaction site [polypeptide binding]; other site 1094489001835 GTP/Mg2+ binding site [chemical binding]; other site 1094489001836 Switch I region; other site 1094489001837 G2 box; other site 1094489001838 G3 box; other site 1094489001839 Switch II region; other site 1094489001840 G4 box; other site 1094489001841 G5 box; other site 1094489001842 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 1094489001843 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 1094489001844 Antibiotic Binding Site [chemical binding]; other site 1094489001845 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1094489001846 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1094489001847 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1094489001848 putative homodimer interface [polypeptide binding]; other site 1094489001849 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1094489001850 heterodimer interface [polypeptide binding]; other site 1094489001851 homodimer interface [polypeptide binding]; other site 1094489001852 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1094489001853 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 1094489001854 23S rRNA interface [nucleotide binding]; other site 1094489001855 L7/L12 interface [polypeptide binding]; other site 1094489001856 putative thiostrepton binding site; other site 1094489001857 L25 interface [polypeptide binding]; other site 1094489001858 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 1094489001859 mRNA/rRNA interface [nucleotide binding]; other site 1094489001860 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 1094489001861 23S rRNA interface [nucleotide binding]; other site 1094489001862 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1094489001863 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 1094489001864 L11 interface [polypeptide binding]; other site 1094489001865 putative EF-Tu interaction site [polypeptide binding]; other site 1094489001866 putative EF-G interaction site [polypeptide binding]; other site 1094489001867 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1094489001868 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 1094489001869 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1094489001870 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1094489001871 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 1094489001872 RPB11 interaction site [polypeptide binding]; other site 1094489001873 RPB12 interaction site [polypeptide binding]; other site 1094489001874 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 1094489001875 RPB3 interaction site [polypeptide binding]; other site 1094489001876 RPB1 interaction site [polypeptide binding]; other site 1094489001877 RPB11 interaction site [polypeptide binding]; other site 1094489001878 RPB10 interaction site [polypeptide binding]; other site 1094489001879 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1094489001880 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1094489001881 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1094489001882 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1094489001883 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1094489001884 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1094489001885 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1094489001886 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1094489001887 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1094489001888 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 1094489001889 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1094489001890 DNA binding site [nucleotide binding] 1094489001891 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1094489001892 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1094489001893 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1094489001894 DNA binding residues [nucleotide binding] 1094489001895 putative dimer interface [polypeptide binding]; other site 1094489001896 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 1094489001897 putative FMN binding site [chemical binding]; other site 1094489001898 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1094489001899 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1094489001900 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1094489001901 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1094489001902 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1094489001903 Sporulation related domain; Region: SPOR; pfam05036 1094489001904 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1094489001905 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1094489001906 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 1094489001907 Walker A motif; other site 1094489001908 ATP binding site [chemical binding]; other site 1094489001909 Walker B motif; other site 1094489001910 arginine finger; other site 1094489001911 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 1094489001912 Walker A motif; other site 1094489001913 ATP binding site [chemical binding]; other site 1094489001914 Walker B motif; other site 1094489001915 arginine finger; other site 1094489001916 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1094489001917 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 1094489001918 HIT family signature motif; other site 1094489001919 catalytic residue [active] 1094489001920 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 1094489001921 homotrimer interaction site [polypeptide binding]; other site 1094489001922 putative active site [active] 1094489001923 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 1094489001924 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 1094489001925 rRNA interaction site [nucleotide binding]; other site 1094489001926 S8 interaction site; other site 1094489001927 putative laminin-1 binding site; other site 1094489001928 elongation factor Ts; Provisional; Region: tsf; PRK09377 1094489001929 UBA/TS-N domain; Region: UBA; pfam00627 1094489001930 Elongation factor TS; Region: EF_TS; pfam00889 1094489001931 Elongation factor TS; Region: EF_TS; pfam00889 1094489001932 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 1094489001933 putative nucleotide binding site [chemical binding]; other site 1094489001934 uridine monophosphate binding site [chemical binding]; other site 1094489001935 homohexameric interface [polypeptide binding]; other site 1094489001936 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1094489001937 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 1094489001938 hinge region; other site 1094489001939 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 1094489001940 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1094489001941 catalytic residue [active] 1094489001942 putative FPP diphosphate binding site; other site 1094489001943 putative FPP binding hydrophobic cleft; other site 1094489001944 dimer interface [polypeptide binding]; other site 1094489001945 putative IPP diphosphate binding site; other site 1094489001946 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1094489001947 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1094489001948 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1094489001949 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 1094489001950 active site 1094489001951 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 1094489001952 protein binding site [polypeptide binding]; other site 1094489001953 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1094489001954 putative substrate binding region [chemical binding]; other site 1094489001955 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1094489001956 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1094489001957 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1094489001958 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1094489001959 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1094489001960 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1094489001961 Surface antigen; Region: Bac_surface_Ag; pfam01103 1094489001962 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1094489001963 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1094489001964 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 1094489001965 trimer interface [polypeptide binding]; other site 1094489001966 active site 1094489001967 UDP-GlcNAc binding site [chemical binding]; other site 1094489001968 lipid binding site [chemical binding]; lipid-binding site 1094489001969 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 1094489001970 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1094489001971 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 1094489001972 active site 1094489001973 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 1094489001974 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1094489001975 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1094489001976 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1094489001977 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1094489001978 Walker A/P-loop; other site 1094489001979 ATP binding site [chemical binding]; other site 1094489001980 Q-loop/lid; other site 1094489001981 ABC transporter signature motif; other site 1094489001982 Walker B; other site 1094489001983 D-loop; other site 1094489001984 H-loop/switch region; other site 1094489001985 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1094489001986 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 1094489001987 dimer interface [polypeptide binding]; other site 1094489001988 conserved gate region; other site 1094489001989 putative PBP binding loops; other site 1094489001990 ABC-ATPase subunit interface; other site 1094489001991 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1094489001992 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 1094489001993 dimer interface [polypeptide binding]; other site 1094489001994 conserved gate region; other site 1094489001995 putative PBP binding loops; other site 1094489001996 ABC-ATPase subunit interface; other site 1094489001997 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 1094489001998 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1094489001999 substrate binding pocket [chemical binding]; other site 1094489002000 membrane-bound complex binding site; other site 1094489002001 hinge residues; other site 1094489002002 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 1094489002003 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1094489002004 dimer interface [polypeptide binding]; other site 1094489002005 active site 1094489002006 citrylCoA binding site [chemical binding]; other site 1094489002007 NADH binding [chemical binding]; other site 1094489002008 cationic pore residues; other site 1094489002009 oxalacetate/citrate binding site [chemical binding]; other site 1094489002010 coenzyme A binding site [chemical binding]; other site 1094489002011 catalytic triad [active] 1094489002012 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1094489002013 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1094489002014 active site 1094489002015 HIGH motif; other site 1094489002016 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1094489002017 active site 1094489002018 KMSKS motif; other site 1094489002019 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1094489002020 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1094489002021 Competence protein; Region: Competence; pfam03772 1094489002022 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 1094489002023 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094489002024 active site 1094489002025 dimer interface [polypeptide binding]; other site 1094489002026 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1094489002027 glutathione reductase; Validated; Region: PRK06116 1094489002028 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1094489002029 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1094489002030 NAD synthetase; Provisional; Region: PRK13981 1094489002031 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1094489002032 multimer interface [polypeptide binding]; other site 1094489002033 active site 1094489002034 catalytic triad [active] 1094489002035 protein interface 1 [polypeptide binding]; other site 1094489002036 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 1094489002037 homodimer interface [polypeptide binding]; other site 1094489002038 NAD binding pocket [chemical binding]; other site 1094489002039 ATP binding pocket [chemical binding]; other site 1094489002040 Mg binding site [ion binding]; other site 1094489002041 active-site loop [active] 1094489002042 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1094489002043 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094489002044 active site 1094489002045 HIGH motif; other site 1094489002046 nucleotide binding site [chemical binding]; other site 1094489002047 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1094489002048 active site 1094489002049 KMSKS motif; other site 1094489002050 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1094489002051 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 1094489002052 ATP binding site [chemical binding]; other site 1094489002053 Mg++ binding site [ion binding]; other site 1094489002054 motif III; other site 1094489002055 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 1094489002056 nucleotide binding region [chemical binding]; other site 1094489002057 ATP-binding site [chemical binding]; other site 1094489002058 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1094489002059 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1094489002060 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1094489002061 Response regulator receiver domain; Region: Response_reg; pfam00072 1094489002062 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 1094489002063 active site 1094489002064 phosphorylation site [posttranslational modification] 1094489002065 intermolecular recognition site; other site 1094489002066 dimerization interface [polypeptide binding]; other site 1094489002067 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1094489002068 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1094489002069 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 1094489002070 putative dimer interface [polypeptide binding]; other site 1094489002071 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1094489002072 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1094489002073 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1094489002074 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1094489002075 putative acyl-acceptor binding pocket; other site 1094489002076 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1094489002077 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1094489002078 NAD(P) binding site [chemical binding]; other site 1094489002079 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 1094489002080 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 1094489002081 dimer interface [polypeptide binding]; other site 1094489002082 active site 1094489002083 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 1094489002084 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 1094489002085 active site 1094489002086 acyl carrier protein; Provisional; Region: PRK06508 1094489002087 malic enzyme; Reviewed; Region: PRK12862 1094489002088 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1094489002089 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1094489002090 putative NAD(P) binding site [chemical binding]; other site 1094489002091 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1094489002092 transferase, transferring glycosyl groups; Region: PLN02939 1094489002093 Prominin; Region: Prominin; pfam05478 1094489002094 bacterial Hfq-like; Region: Hfq; cd01716 1094489002095 hexamer interface [polypeptide binding]; other site 1094489002096 Sm1 motif; other site 1094489002097 RNA binding site [nucleotide binding]; other site 1094489002098 Sm2 motif; other site 1094489002099 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1094489002100 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1094489002101 HflX GTPase family; Region: HflX; cd01878 1094489002102 G1 box; other site 1094489002103 GTP/Mg2+ binding site [chemical binding]; other site 1094489002104 Switch I region; other site 1094489002105 G2 box; other site 1094489002106 G3 box; other site 1094489002107 Switch II region; other site 1094489002108 G4 box; other site 1094489002109 G5 box; other site 1094489002110 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1094489002111 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 1094489002112 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1094489002113 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1094489002114 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1094489002115 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 1094489002116 dimer interface [polypeptide binding]; other site 1094489002117 active site 1094489002118 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1094489002119 folate binding site [chemical binding]; other site 1094489002120 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1094489002121 ATP cone domain; Region: ATP-cone; pfam03477 1094489002122 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1094489002123 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 1094489002124 catalytic motif [active] 1094489002125 Zn binding site [ion binding]; other site 1094489002126 RibD C-terminal domain; Region: RibD_C; cl17279 1094489002127 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1094489002128 Lumazine binding domain; Region: Lum_binding; pfam00677 1094489002129 Lumazine binding domain; Region: Lum_binding; pfam00677 1094489002130 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 1094489002131 homopentamer interface [polypeptide binding]; other site 1094489002132 active site 1094489002133 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1094489002134 putative RNA binding site [nucleotide binding]; other site 1094489002135 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1094489002136 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1094489002137 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1094489002138 putative phosphate acyltransferase; Provisional; Region: PRK05331 1094489002139 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1094489002140 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 1094489002141 dimer interface [polypeptide binding]; other site 1094489002142 active site 1094489002143 CoA binding pocket [chemical binding]; other site 1094489002144 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 1094489002145 IHF dimer interface [polypeptide binding]; other site 1094489002146 IHF - DNA interface [nucleotide binding]; other site 1094489002147 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1094489002148 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1094489002149 DNA binding residues [nucleotide binding] 1094489002150 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1094489002151 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 1094489002152 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1094489002153 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 1094489002154 active site 1094489002155 dimer interface [polypeptide binding]; other site 1094489002156 motif 1; other site 1094489002157 motif 2; other site 1094489002158 motif 3; other site 1094489002159 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 1094489002160 anticodon binding site; other site 1094489002161 hypothetical protein; Validated; Region: PRK00041 1094489002162 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1094489002163 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1094489002164 trimerization site [polypeptide binding]; other site 1094489002165 active site 1094489002166 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1094489002167 GTP cyclohydrolase I; Provisional; Region: PLN03044 1094489002168 active site 1094489002169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1094489002170 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489002171 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 1094489002172 SecA binding site; other site 1094489002173 Preprotein binding site; other site 1094489002174 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1094489002175 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1094489002176 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1094489002177 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1094489002178 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1094489002179 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1094489002180 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1094489002181 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1094489002182 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 1094489002183 carboxyltransferase (CT) interaction site; other site 1094489002184 biotinylation site [posttranslational modification]; other site 1094489002185 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 1094489002186 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1094489002187 catalytic residues [active] 1094489002188 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1094489002189 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1094489002190 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 1094489002191 FMN binding site [chemical binding]; other site 1094489002192 active site 1094489002193 catalytic residues [active] 1094489002194 substrate binding site [chemical binding]; other site 1094489002195 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1094489002196 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1094489002197 putative dimer interface [polypeptide binding]; other site 1094489002198 active site pocket [active] 1094489002199 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1094489002200 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1094489002201 Catalytic site; other site 1094489002202 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1094489002203 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 1094489002204 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1094489002205 putative substrate translocation pore; other site 1094489002206 ribonuclease R; Region: RNase_R; TIGR02063 1094489002207 RNB domain; Region: RNB; pfam00773 1094489002208 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 1094489002209 RNA binding site [nucleotide binding]; other site 1094489002210 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1094489002211 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 1094489002212 active site 1094489002213 interdomain interaction site; other site 1094489002214 putative metal-binding site [ion binding]; other site 1094489002215 nucleotide binding site [chemical binding]; other site 1094489002216 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 1094489002217 domain I; other site 1094489002218 DNA binding groove [nucleotide binding] 1094489002219 phosphate binding site [ion binding]; other site 1094489002220 domain II; other site 1094489002221 domain III; other site 1094489002222 nucleotide binding site [chemical binding]; other site 1094489002223 catalytic site [active] 1094489002224 domain IV; other site 1094489002225 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1094489002226 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1094489002227 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1094489002228 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1094489002229 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1094489002230 DNA protecting protein DprA; Region: dprA; TIGR00732 1094489002231 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1094489002232 dihydroorotase; Validated; Region: PRK09059 1094489002233 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 1094489002234 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 1094489002235 active site 1094489002236 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1094489002237 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1094489002238 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1094489002239 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1094489002240 active site 1094489002241 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1094489002242 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1094489002243 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1094489002244 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1094489002245 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1094489002246 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1094489002247 Walker A/P-loop; other site 1094489002248 ATP binding site [chemical binding]; other site 1094489002249 Q-loop/lid; other site 1094489002250 ABC transporter signature motif; other site 1094489002251 Walker B; other site 1094489002252 D-loop; other site 1094489002253 H-loop/switch region; other site 1094489002254 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1094489002255 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1094489002256 Walker A/P-loop; other site 1094489002257 ATP binding site [chemical binding]; other site 1094489002258 Q-loop/lid; other site 1094489002259 ABC transporter signature motif; other site 1094489002260 Walker B; other site 1094489002261 D-loop; other site 1094489002262 H-loop/switch region; other site 1094489002263 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 1094489002264 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1094489002265 TM-ABC transporter signature motif; other site 1094489002266 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 1094489002267 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1094489002268 TM-ABC transporter signature motif; other site 1094489002269 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1094489002270 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 1094489002271 putative ligand binding site [chemical binding]; other site 1094489002272 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 1094489002273 DNA-binding site [nucleotide binding]; DNA binding site 1094489002274 RNA-binding motif; other site 1094489002275 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 1094489002276 DNA-binding site [nucleotide binding]; DNA binding site 1094489002277 RNA-binding motif; other site 1094489002278 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1094489002279 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1094489002280 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1094489002281 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 1094489002282 hypothetical protein; Reviewed; Region: PRK00024 1094489002283 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1094489002284 MPN+ (JAMM) motif; other site 1094489002285 Zinc-binding site [ion binding]; other site 1094489002286 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 1094489002287 active site 1094489002288 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1094489002289 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1094489002290 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1094489002291 glutamate racemase; Provisional; Region: PRK00865 1094489002292 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1094489002293 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1094489002294 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 1094489002295 RNA binding surface [nucleotide binding]; other site 1094489002296 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1094489002297 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 1094489002298 Ligand Binding Site [chemical binding]; other site 1094489002299 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1094489002300 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1094489002301 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 1094489002302 FeS/SAM binding site; other site 1094489002303 LexA repressor; Validated; Region: PRK00215 1094489002304 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1094489002305 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 1094489002306 Catalytic site [active] 1094489002307 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1094489002308 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1094489002309 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1094489002310 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1094489002311 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1094489002312 thymidylate kinase; Validated; Region: tmk; PRK00698 1094489002313 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 1094489002314 TMP-binding site; other site 1094489002315 ATP-binding site [chemical binding]; other site 1094489002316 DNA polymerase III subunit delta'; Validated; Region: PRK09112 1094489002317 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 1094489002318 Walker A motif; other site 1094489002319 ATP binding site [chemical binding]; other site 1094489002320 Walker B motif; other site 1094489002321 arginine finger; other site 1094489002322 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1094489002323 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1094489002324 active site 1094489002325 HIGH motif; other site 1094489002326 KMSKS motif; other site 1094489002327 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1094489002328 tRNA binding surface [nucleotide binding]; other site 1094489002329 anticodon binding site; other site 1094489002330 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1094489002331 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1094489002332 active site 1094489002333 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1094489002334 putative hydrolase; Provisional; Region: PRK02113 1094489002335 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1094489002336 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 1094489002337 substrate binding site [chemical binding]; other site 1094489002338 oxyanion hole (OAH) forming residues; other site 1094489002339 trimer interface [polypeptide binding]; other site 1094489002340 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1094489002341 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1094489002342 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1094489002343 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 1094489002344 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1094489002345 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 1094489002346 nudix motif; other site 1094489002347 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489002348 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 1094489002349 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1094489002350 E-class dimer interface [polypeptide binding]; other site 1094489002351 P-class dimer interface [polypeptide binding]; other site 1094489002352 active site 1094489002353 Cu2+ binding site [ion binding]; other site 1094489002354 Zn2+ binding site [ion binding]; other site 1094489002355 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1094489002356 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1094489002357 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 1094489002358 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1094489002359 catalytic residue [active] 1094489002360 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1094489002361 FeS assembly protein SufD; Region: sufD; TIGR01981 1094489002362 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1094489002363 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1094489002364 Walker A/P-loop; other site 1094489002365 ATP binding site [chemical binding]; other site 1094489002366 Q-loop/lid; other site 1094489002367 ABC transporter signature motif; other site 1094489002368 Walker B; other site 1094489002369 D-loop; other site 1094489002370 H-loop/switch region; other site 1094489002371 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1094489002372 putative ABC transporter; Region: ycf24; CHL00085 1094489002373 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1094489002374 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1094489002375 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1094489002376 catalytic residue [active] 1094489002377 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1094489002378 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1094489002379 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1094489002380 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1094489002381 active site 1094489002382 HIGH motif; other site 1094489002383 dimer interface [polypeptide binding]; other site 1094489002384 KMSKS motif; other site 1094489002385 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 1094489002386 RNA binding surface [nucleotide binding]; other site 1094489002387 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 1094489002388 catalytic triad [active] 1094489002389 peptide chain release factor 2; Provisional; Region: PRK07342 1094489002390 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1094489002391 RF-1 domain; Region: RF-1; pfam00472 1094489002392 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1094489002393 Transglycosylase; Region: Transgly; pfam00912 1094489002394 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1094489002395 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1094489002396 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 1094489002397 active site 1094489002398 metal binding site [ion binding]; metal-binding site 1094489002399 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 1094489002400 RNA binding site [nucleotide binding]; other site 1094489002401 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 1094489002402 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1094489002403 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1094489002404 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1094489002405 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 1094489002406 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1094489002407 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1094489002408 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 1094489002409 ATP binding site [chemical binding]; other site 1094489002410 putative Mg++ binding site [ion binding]; other site 1094489002411 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 1094489002412 nucleotide binding region [chemical binding]; other site 1094489002413 ATP-binding site [chemical binding]; other site 1094489002414 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1094489002415 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1094489002416 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1094489002417 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1094489002418 Walker A/P-loop; other site 1094489002419 ATP binding site [chemical binding]; other site 1094489002420 Q-loop/lid; other site 1094489002421 ABC transporter signature motif; other site 1094489002422 Walker B; other site 1094489002423 D-loop; other site 1094489002424 H-loop/switch region; other site 1094489002425 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1094489002426 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1094489002427 FtsX-like permease family; Region: FtsX; pfam02687 1094489002428 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1094489002429 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 1094489002430 dimer interface [polypeptide binding]; other site 1094489002431 motif 1; other site 1094489002432 active site 1094489002433 motif 2; other site 1094489002434 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 1094489002435 active site 1094489002436 motif 3; other site 1094489002437 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 1094489002438 anticodon binding site; other site 1094489002439 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1094489002440 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1094489002441 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1094489002442 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1094489002443 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1094489002444 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1094489002445 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00196 1094489002446 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1094489002447 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1094489002448 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1094489002449 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1094489002450 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1094489002451 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1094489002452 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 1094489002453 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1094489002454 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1094489002455 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1094489002456 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1094489002457 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1094489002458 4Fe-4S binding domain; Region: Fer4; pfam00037 1094489002459 4Fe-4S binding domain; Region: Fer4; pfam00037 1094489002460 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1094489002461 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1094489002462 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 1094489002463 catalytic loop [active] 1094489002464 iron binding site [ion binding]; other site 1094489002465 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1094489002466 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 1094489002467 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1094489002468 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1094489002469 SLBB domain; Region: SLBB; pfam10531 1094489002470 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1094489002471 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1094489002472 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 1094489002473 putative dimer interface [polypeptide binding]; other site 1094489002474 [2Fe-2S] cluster binding site [ion binding]; other site 1094489002475 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1094489002476 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1094489002477 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1094489002478 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1094489002479 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1094489002480 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1094489002481 LemA family; Region: LemA; pfam04011 1094489002482 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1094489002483 Repair protein; Region: Repair_PSII; pfam04536 1094489002484 lipoate-protein ligase B; Provisional; Region: PRK14341 1094489002485 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1094489002486 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 1094489002487 ATP binding site [chemical binding]; other site 1094489002488 Mg2+ binding site [ion binding]; other site 1094489002489 G-X-G motif; other site 1094489002490 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 1094489002491 anchoring element; other site 1094489002492 dimer interface [polypeptide binding]; other site 1094489002493 ATP binding site [chemical binding]; other site 1094489002494 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 1094489002495 active site 1094489002496 metal binding site [ion binding]; metal-binding site 1094489002497 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1094489002498 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1094489002499 DHH family; Region: DHH; pfam01368 1094489002500 DHHA1 domain; Region: DHHA1; pfam02272 1094489002501 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 1094489002502 23S rRNA interface [nucleotide binding]; other site 1094489002503 L3 interface [polypeptide binding]; other site 1094489002504 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1094489002505 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1094489002506 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 1094489002507 active site 1094489002508 phosphorylation site [posttranslational modification] 1094489002509 intermolecular recognition site; other site 1094489002510 dimerization interface [polypeptide binding]; other site 1094489002511 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 1094489002512 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094489002513 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094489002514 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 1094489002515 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 1094489002516 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1094489002517 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1094489002518 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1094489002519 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1094489002520 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 1094489002521 dimerization interface [polypeptide binding]; other site 1094489002522 putative ATP binding site [chemical binding]; other site 1094489002523 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1094489002524 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1094489002525 active site 1094489002526 substrate binding site [chemical binding]; other site 1094489002527 cosubstrate binding site; other site 1094489002528 catalytic site [active] 1094489002529 PAS fold; Region: PAS_4; pfam08448 1094489002530 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 1094489002531 putative active site [active] 1094489002532 heme pocket [chemical binding]; other site 1094489002533 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1094489002534 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 1094489002535 dimer interface [polypeptide binding]; other site 1094489002536 phosphorylation site [posttranslational modification] 1094489002537 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 1094489002538 ATP binding site [chemical binding]; other site 1094489002539 Mg2+ binding site [ion binding]; other site 1094489002540 G-X-G motif; other site 1094489002541 Response regulator receiver domain; Region: Response_reg; pfam00072 1094489002542 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 1094489002543 active site 1094489002544 phosphorylation site [posttranslational modification] 1094489002545 intermolecular recognition site; other site 1094489002546 dimerization interface [polypeptide binding]; other site 1094489002547 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1094489002548 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1094489002549 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 1094489002550 substrate binding site [chemical binding]; other site 1094489002551 hexamer interface [polypeptide binding]; other site 1094489002552 metal binding site [ion binding]; metal-binding site 1094489002553 adenylosuccinate lyase; Provisional; Region: PRK07492 1094489002554 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1094489002555 tetramer interface [polypeptide binding]; other site 1094489002556 active site 1094489002557 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1094489002558 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1094489002559 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1094489002560 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1094489002561 ATP binding site [chemical binding]; other site 1094489002562 active site 1094489002563 substrate binding site [chemical binding]; other site 1094489002564 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1094489002565 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1094489002566 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1094489002567 putative active site [active] 1094489002568 catalytic triad [active] 1094489002569 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1094489002570 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 1094489002571 dimerization interface [polypeptide binding]; other site 1094489002572 ATP binding site [chemical binding]; other site 1094489002573 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 1094489002574 dimerization interface [polypeptide binding]; other site 1094489002575 ATP binding site [chemical binding]; other site 1094489002576 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1094489002577 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 1094489002578 putative GSH binding site [chemical binding]; other site 1094489002579 catalytic residues [active] 1094489002580 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1094489002581 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 1094489002582 putative substrate translocation pore; other site 1094489002583 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1094489002584 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 1094489002585 CAP-like domain; other site 1094489002586 active site 1094489002587 primary dimer interface [polypeptide binding]; other site 1094489002588 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1094489002589 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 1094489002590 dimer interface [polypeptide binding]; other site 1094489002591 anticodon binding site; other site 1094489002592 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 1094489002593 homodimer interface [polypeptide binding]; other site 1094489002594 motif 1; other site 1094489002595 active site 1094489002596 motif 2; other site 1094489002597 GAD domain; Region: GAD; pfam02938 1094489002598 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 1094489002599 active site 1094489002600 motif 3; other site 1094489002601 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1094489002602 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1094489002603 catalytic site [active] 1094489002604 putative active site [active] 1094489002605 putative substrate binding site [chemical binding]; other site 1094489002606 HRDC domain; Region: HRDC; pfam00570 1094489002607 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1094489002608 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1094489002609 polyphosphate kinase; Provisional; Region: PRK05443 1094489002610 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1094489002611 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1094489002612 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1094489002613 putative domain interface [polypeptide binding]; other site 1094489002614 putative active site [active] 1094489002615 catalytic site [active] 1094489002616 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1094489002617 putative domain interface [polypeptide binding]; other site 1094489002618 putative active site [active] 1094489002619 catalytic site [active] 1094489002620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1094489002621 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1094489002622 salicylate hydroxylase; Provisional; Region: PRK08163 1094489002623 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1094489002624 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1094489002625 putative active site [active] 1094489002626 putative PHP Thumb interface [polypeptide binding]; other site 1094489002627 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 1094489002628 generic binding surface II; other site 1094489002629 generic binding surface I; other site 1094489002630 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1094489002631 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 1094489002632 generic binding surface II; other site 1094489002633 ssDNA binding site; other site 1094489002634 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 1094489002635 ATP binding site [chemical binding]; other site 1094489002636 putative Mg++ binding site [ion binding]; other site 1094489002637 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 1094489002638 nucleotide binding region [chemical binding]; other site 1094489002639 ATP-binding site [chemical binding]; other site 1094489002640 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1094489002641 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 1094489002642 glutaminase active site [active] 1094489002643 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 1094489002644 dimer interface [polypeptide binding]; other site 1094489002645 active site 1094489002646 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 1094489002647 dimer interface [polypeptide binding]; other site 1094489002648 active site 1094489002649 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 1094489002650 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1094489002651 Substrate binding site; other site 1094489002652 Mg++ binding site; other site 1094489002653 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 1094489002654 active site 1094489002655 substrate binding site [chemical binding]; other site 1094489002656 CoA binding site [chemical binding]; other site 1094489002657 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1094489002658 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1094489002659 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1094489002660 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1094489002661 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1094489002662 Zn2+ binding site [ion binding]; other site 1094489002663 Mg2+ binding site [ion binding]; other site 1094489002664 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1094489002665 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1094489002666 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1094489002667 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1094489002668 active site 1094489002669 HIGH motif; other site 1094489002670 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094489002671 KMSK motif region; other site 1094489002672 tRNA binding surface [nucleotide binding]; other site 1094489002673 DALR anticodon binding domain; Region: DALR_1; smart00836 1094489002674 anticodon binding site; other site 1094489002675 Sporulation related domain; Region: SPOR; pfam05036 1094489002676 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1094489002677 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 1094489002678 homodimer interface [polypeptide binding]; other site 1094489002679 substrate-cofactor binding pocket; other site 1094489002680 catalytic residue [active] 1094489002681 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1094489002682 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 1094489002683 putative active site [active] 1094489002684 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1094489002685 isocitrate dehydrogenase; Validated; Region: PRK08299 1094489002686 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 1094489002687 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1094489002688 putative substrate translocation pore; other site 1094489002689 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1094489002690 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1094489002691 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 1094489002692 active site 1094489002693 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 1094489002694 active site 1094489002695 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1094489002696 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1094489002697 active site 1094489002698 (T/H)XGH motif; other site 1094489002699 DNA gyrase subunit A; Validated; Region: PRK05560 1094489002700 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 1094489002701 CAP-like domain; other site 1094489002702 active site 1094489002703 primary dimer interface [polypeptide binding]; other site 1094489002704 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094489002705 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094489002706 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094489002707 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094489002708 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1094489002709 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1094489002710 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 1094489002711 dimer interface [polypeptide binding]; other site 1094489002712 ssDNA binding site [nucleotide binding]; other site 1094489002713 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094489002714 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1094489002715 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1094489002716 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1094489002717 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1094489002718 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1094489002719 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1094489002720 glutamine synthetase; Provisional; Region: glnA; PRK09469 1094489002721 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1094489002722 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1094489002723 ATP12 chaperone protein; Region: ATP12; cl02228 1094489002724 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1094489002725 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1094489002726 active site 1094489002727 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1094489002728 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 1094489002729 motif 1; other site 1094489002730 active site 1094489002731 motif 2; other site 1094489002732 motif 3; other site 1094489002733 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1094489002734 recombinase A; Provisional; Region: recA; PRK09354 1094489002735 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 1094489002736 hexamer interface [polypeptide binding]; other site 1094489002737 Walker A motif; other site 1094489002738 ATP binding site [chemical binding]; other site 1094489002739 Walker B motif; other site 1094489002740 recombination factor protein RarA; Reviewed; Region: PRK13342 1094489002741 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 1094489002742 Walker A motif; other site 1094489002743 ATP binding site [chemical binding]; other site 1094489002744 Walker B motif; other site 1094489002745 arginine finger; other site 1094489002746 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1094489002747 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1094489002748 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1094489002749 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 1094489002750 protein binding site [polypeptide binding]; other site 1094489002751 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 1094489002752 protein binding site [polypeptide binding]; other site 1094489002753 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1094489002754 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1094489002755 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1094489002756 alphaNTD homodimer interface [polypeptide binding]; other site 1094489002757 alphaNTD - beta interaction site [polypeptide binding]; other site 1094489002758 alphaNTD - beta' interaction site [polypeptide binding]; other site 1094489002759 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1094489002760 30S ribosomal protein S11; Validated; Region: PRK05309 1094489002761 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1094489002762 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1094489002763 adenylate kinase; Reviewed; Region: adk; PRK00279 1094489002764 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 1094489002765 AMP-binding site [chemical binding]; other site 1094489002766 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1094489002767 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1094489002768 SecY translocase; Region: SecY; pfam00344 1094489002769 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1094489002770 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 1094489002771 23S rRNA binding site [nucleotide binding]; other site 1094489002772 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1094489002773 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1094489002774 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1094489002775 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 1094489002776 5S rRNA interface [nucleotide binding]; other site 1094489002777 23S rRNA interface [nucleotide binding]; other site 1094489002778 L5 interface [polypeptide binding]; other site 1094489002779 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1094489002780 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1094489002781 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1094489002782 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1094489002783 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1094489002784 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1094489002785 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1094489002786 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1094489002787 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1094489002788 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1094489002789 RNA binding site [nucleotide binding]; other site 1094489002790 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1094489002791 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1094489002792 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 1094489002793 23S rRNA interface [nucleotide binding]; other site 1094489002794 putative translocon interaction site; other site 1094489002795 signal recognition particle (SRP54) interaction site; other site 1094489002796 L23 interface [polypeptide binding]; other site 1094489002797 trigger factor interaction site; other site 1094489002798 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 1094489002799 23S rRNA interface [nucleotide binding]; other site 1094489002800 5S rRNA interface [nucleotide binding]; other site 1094489002801 putative antibiotic binding site [chemical binding]; other site 1094489002802 L25 interface [polypeptide binding]; other site 1094489002803 L27 interface [polypeptide binding]; other site 1094489002804 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1094489002805 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 1094489002806 G-X-X-G motif; other site 1094489002807 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1094489002808 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 1094489002809 putative translocon binding site; other site 1094489002810 protein-rRNA interface [nucleotide binding]; other site 1094489002811 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1094489002812 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1094489002813 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1094489002814 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1094489002815 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1094489002816 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1094489002817 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1094489002818 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1094489002819 elongation factor Tu; Reviewed; Region: PRK00049 1094489002820 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1094489002821 G1 box; other site 1094489002822 GEF interaction site [polypeptide binding]; other site 1094489002823 GTP/Mg2+ binding site [chemical binding]; other site 1094489002824 Switch I region; other site 1094489002825 G2 box; other site 1094489002826 G3 box; other site 1094489002827 Switch II region; other site 1094489002828 G4 box; other site 1094489002829 G5 box; other site 1094489002830 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 1094489002831 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 1094489002832 Antibiotic Binding Site [chemical binding]; other site 1094489002833 elongation factor G; Reviewed; Region: PRK00007 1094489002834 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1094489002835 G1 box; other site 1094489002836 putative GEF interaction site [polypeptide binding]; other site 1094489002837 GTP/Mg2+ binding site [chemical binding]; other site 1094489002838 Switch I region; other site 1094489002839 G2 box; other site 1094489002840 G3 box; other site 1094489002841 Switch II region; other site 1094489002842 G4 box; other site 1094489002843 G5 box; other site 1094489002844 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 1094489002845 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 1094489002846 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 1094489002847 30S ribosomal protein S7; Validated; Region: PRK05302 1094489002848 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 1094489002849 S17 interaction site [polypeptide binding]; other site 1094489002850 S8 interaction site; other site 1094489002851 16S rRNA interaction site [nucleotide binding]; other site 1094489002852 streptomycin interaction site [chemical binding]; other site 1094489002853 23S rRNA interaction site [nucleotide binding]; other site 1094489002854 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1094489002855 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 1094489002856 putative catalytic site [active] 1094489002857 putative phosphate binding site [ion binding]; other site 1094489002858 active site 1094489002859 metal binding site A [ion binding]; metal-binding site 1094489002860 DNA binding site [nucleotide binding] 1094489002861 putative AP binding site [nucleotide binding]; other site 1094489002862 putative metal binding site B [ion binding]; other site 1094489002863 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1094489002864 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 1094489002865 substrate binding pocket [chemical binding]; other site 1094489002866 membrane-bound complex binding site; other site 1094489002867 hinge residues; other site 1094489002868 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1094489002869 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 1094489002870 dimer interface [polypeptide binding]; other site 1094489002871 conserved gate region; other site 1094489002872 putative PBP binding loops; other site 1094489002873 ABC-ATPase subunit interface; other site 1094489002874 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 1094489002875 dimer interface [polypeptide binding]; other site 1094489002876 conserved gate region; other site 1094489002877 putative PBP binding loops; other site 1094489002878 ABC-ATPase subunit interface; other site 1094489002879 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1094489002880 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1094489002881 Walker A/P-loop; other site 1094489002882 ATP binding site [chemical binding]; other site 1094489002883 Q-loop/lid; other site 1094489002884 ABC transporter signature motif; other site 1094489002885 Walker B; other site 1094489002886 D-loop; other site 1094489002887 H-loop/switch region; other site 1094489002888 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1094489002889 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1094489002890 HIGH motif; other site 1094489002891 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1094489002892 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1094489002893 active site 1094489002894 KMSKS motif; other site 1094489002895 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1094489002896 tRNA binding surface [nucleotide binding]; other site 1094489002897 anticodon binding site; other site 1094489002898 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1094489002899 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 1094489002900 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1094489002901 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1094489002902 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 1094489002903 S-adenosylmethionine binding site [chemical binding]; other site 1094489002904 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 1094489002905 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1094489002906 ATP binding site [chemical binding]; other site 1094489002907 Mg++ binding site [ion binding]; other site 1094489002908 motif III; other site 1094489002909 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 1094489002910 nucleotide binding region [chemical binding]; other site 1094489002911 ATP-binding site [chemical binding]; other site 1094489002912 threonine dehydratase; Validated; Region: PRK08639 1094489002913 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 1094489002914 tetramer interface [polypeptide binding]; other site 1094489002915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094489002916 catalytic residue [active] 1094489002917 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1094489002918 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1094489002919 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1094489002920 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1094489002921 Protein export membrane protein; Region: SecD_SecF; pfam02355 1094489002922 putative cation:proton antiport protein; Provisional; Region: PRK10669 1094489002923 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1094489002924 TrkA-N domain; Region: TrkA_N; pfam02254 1094489002925 Predicted integral membrane protein [Function unknown]; Region: COG0392 1094489002926 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1094489002927 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1094489002928 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 1094489002929 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1094489002930 Transporter associated domain; Region: CorC_HlyC; smart01091 1094489002931 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1094489002932 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1094489002933 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1094489002934 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1094489002935 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1094489002936 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 1094489002937 active site 1094489002938 hydrophilic channel; other site 1094489002939 dimerization interface [polypeptide binding]; other site 1094489002940 catalytic residues [active] 1094489002941 active site lid [active] 1094489002942 AAA domain; Region: AAA_30; pfam13604 1094489002943 AAA domain; Region: AAA_22; pfam13401 1094489002944 Family description; Region: UvrD_C_2; pfam13538 1094489002945 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1094489002946 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1094489002947 PYR/PP interface [polypeptide binding]; other site 1094489002948 dimer interface [polypeptide binding]; other site 1094489002949 TPP binding site [chemical binding]; other site 1094489002950 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1094489002951 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 1094489002952 TPP-binding site [chemical binding]; other site 1094489002953 dimer interface [polypeptide binding]; other site 1094489002954 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1094489002955 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1094489002956 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1094489002957 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1094489002958 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 1094489002959 protein binding site [polypeptide binding]; other site 1094489002960 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 1094489002961 protein binding site [polypeptide binding]; other site 1094489002962 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1094489002963 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 1094489002964 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 1094489002965 HflK protein; Region: hflK; TIGR01933 1094489002966 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 1094489002967 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1094489002968 folate binding site [chemical binding]; other site 1094489002969 NADP+ binding site [chemical binding]; other site 1094489002970 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1094489002971 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 1094489002972 dimerization interface [polypeptide binding]; other site 1094489002973 active site 1094489002974 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1094489002975 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 1094489002976 putative substrate translocation pore; other site 1094489002977 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1094489002978 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 1094489002979 putative substrate translocation pore; other site 1094489002980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1094489002981 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 1094489002982 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 1094489002983 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1094489002984 Part of AAA domain; Region: AAA_19; pfam13245 1094489002985 RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when...; Region: RhoGAP; cl02570 1094489002986 Family description; Region: UvrD_C_2; pfam13538 1094489002987 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1094489002988 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 1094489002989 Cu(I) binding site [ion binding]; other site 1094489002990 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1094489002991 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 1094489002992 S-adenosylmethionine binding site [chemical binding]; other site 1094489002993 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1094489002994 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1094489002995 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 1094489002996 active site 1094489002997 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1094489002998 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 1094489002999 nucleotide binding pocket [chemical binding]; other site 1094489003000 K-X-D-G motif; other site 1094489003001 catalytic site [active] 1094489003002 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1094489003003 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 1094489003004 Dimer interface [polypeptide binding]; other site 1094489003005 BRCT sequence motif; other site 1094489003006 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1094489003007 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1094489003008 Walker A/P-loop; other site 1094489003009 ATP binding site [chemical binding]; other site 1094489003010 Q-loop/lid; other site 1094489003011 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1094489003012 Q-loop/lid; other site 1094489003013 ABC transporter signature motif; other site 1094489003014 Walker B; other site 1094489003015 D-loop; other site 1094489003016 H-loop/switch region; other site 1094489003017 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1094489003018 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1094489003019 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1094489003020 cell division protein FtsZ; Validated; Region: PRK09330 1094489003021 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 1094489003022 nucleotide binding site [chemical binding]; other site 1094489003023 SulA interaction site; other site 1094489003024 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1094489003025 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1094489003026 Cell division protein FtsA; Region: FtsA; smart00842 1094489003027 Cell division protein FtsA; Region: FtsA; pfam14450 1094489003028 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1094489003029 Cell division protein FtsQ; Region: FtsQ; pfam03799 1094489003030 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1094489003031 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1094489003032 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1094489003033 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1094489003034 FAD binding domain; Region: FAD_binding_4; pfam01565 1094489003035 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1094489003036 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1094489003037 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1094489003038 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1094489003039 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1094489003040 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1094489003041 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 1094489003042 active site 1094489003043 homodimer interface [polypeptide binding]; other site 1094489003044 cell division protein FtsW; Region: ftsW; TIGR02614 1094489003045 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 1094489003046 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 1094489003047 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1094489003048 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1094489003049 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1094489003050 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 1094489003051 Mg++ binding site [ion binding]; other site 1094489003052 putative catalytic motif [active] 1094489003053 putative substrate binding site [chemical binding]; other site 1094489003054 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 1094489003055 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1094489003056 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1094489003057 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1094489003058 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1094489003059 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1094489003060 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1094489003061 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1094489003062 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1094489003063 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1094489003064 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1094489003065 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1094489003066 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 1094489003067 S-adenosylmethionine binding site [chemical binding]; other site 1094489003068 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1094489003069 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 1094489003070 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1094489003071 catalytic residue [active] 1094489003072 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1094489003073 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094489003074 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094489003075 ABC transporter; Region: ABC_tran_2; pfam12848 1094489003076 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094489003077 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 1094489003078 Isochorismatase family; Region: Isochorismatase; pfam00857 1094489003079 catalytic triad [active] 1094489003080 metal binding site [ion binding]; metal-binding site 1094489003081 conserved cis-peptide bond; other site 1094489003082 hypothetical protein; Provisional; Region: PRK14013 1094489003083 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 1094489003084 non-specific DNA binding site [nucleotide binding]; other site 1094489003085 salt bridge; other site 1094489003086 sequence-specific DNA binding site [nucleotide binding]; other site 1094489003087 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1094489003088 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 1094489003089 catalytic residues [active] 1094489003090 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1094489003091 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1094489003092 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1094489003093 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1094489003094 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1094489003095 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1094489003096 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1094489003097 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1094489003098 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 1094489003099 DNA binding residues [nucleotide binding] 1094489003100 DNA primase; Validated; Region: dnaG; PRK05667 1094489003101 CHC2 zinc finger; Region: zf-CHC2; cl17510 1094489003102 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1094489003103 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 1094489003104 active site 1094489003105 metal binding site [ion binding]; metal-binding site 1094489003106 interdomain interaction site; other site 1094489003107 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1094489003108 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1094489003109 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1094489003110 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1094489003111 Predicted membrane protein [Function unknown]; Region: COG2261 1094489003112 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1094489003113 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1094489003114 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1094489003115 catalytic site [active] 1094489003116 subunit interface [polypeptide binding]; other site 1094489003117 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 1094489003118 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1094489003119 putative substrate translocation pore; other site 1094489003120 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1094489003121 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1094489003122 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1094489003123 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1094489003124 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1094489003125 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1094489003126 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 1094489003127 IMP binding site; other site 1094489003128 dimer interface [polypeptide binding]; other site 1094489003129 interdomain contacts; other site 1094489003130 partial ornithine binding site; other site 1094489003131 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 1094489003132 DNA-binding site [nucleotide binding]; DNA binding site 1094489003133 RNA-binding motif; other site 1094489003134 aspartate aminotransferase; Provisional; Region: PRK05764 1094489003135 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 1094489003136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094489003137 homodimer interface [polypeptide binding]; other site 1094489003138 catalytic residue [active] 1094489003139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1094489003140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1094489003141 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 1094489003142 putative effector binding pocket; other site 1094489003143 dimerization interface [polypeptide binding]; other site 1094489003144 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1094489003145 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1094489003146 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1094489003147 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1094489003148 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1094489003149 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 1094489003150 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1094489003151 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1094489003152 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1094489003153 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1094489003154 excinuclease ABC subunit B; Provisional; Region: PRK05298 1094489003155 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 1094489003156 ATP binding site [chemical binding]; other site 1094489003157 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 1094489003158 nucleotide binding region [chemical binding]; other site 1094489003159 ATP-binding site [chemical binding]; other site 1094489003160 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1094489003161 UvrB/uvrC motif; Region: UVR; pfam02151 1094489003162 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 1094489003163 DNA-binding site [nucleotide binding]; DNA binding site 1094489003164 RNA-binding motif; other site 1094489003165 BA14K-like protein; Region: BA14K; pfam07886 1094489003166 BA14K-like protein; Region: BA14K; pfam07886 1094489003167 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1094489003168 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 1094489003169 Membrane fusogenic activity; Region: BMFP; pfam04380 1094489003170 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1094489003171 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1094489003172 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1094489003173 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1094489003174 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1094489003175 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1094489003176 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1094489003177 active site 1094489003178 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1094489003179 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1094489003180 5S rRNA interface [nucleotide binding]; other site 1094489003181 CTC domain interface [polypeptide binding]; other site 1094489003182 L16 interface [polypeptide binding]; other site 1094489003183 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 1094489003184 putative active site [active] 1094489003185 catalytic residue [active] 1094489003186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1094489003187 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1094489003188 GTP-binding protein YchF; Reviewed; Region: PRK09601 1094489003189 YchF GTPase; Region: YchF; cd01900 1094489003190 G1 box; other site 1094489003191 GTP/Mg2+ binding site [chemical binding]; other site 1094489003192 Switch I region; other site 1094489003193 G2 box; other site 1094489003194 Switch II region; other site 1094489003195 G3 box; other site 1094489003196 G4 box; other site 1094489003197 G5 box; other site 1094489003198 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 1094489003199 PRC-barrel domain; Region: PRC; pfam05239 1094489003200 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1094489003201 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1094489003202 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1094489003203 active site 1094489003204 NTP binding site [chemical binding]; other site 1094489003205 metal binding triad [ion binding]; metal-binding site 1094489003206 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1094489003207 MoxR-like ATPases [General function prediction only]; Region: COG0714 1094489003208 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 1094489003209 Walker A motif; other site 1094489003210 ATP binding site [chemical binding]; other site 1094489003211 Walker B motif; other site 1094489003212 arginine finger; other site 1094489003213 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1094489003214 Protein of unknown function DUF58; Region: DUF58; pfam01882 1094489003215 Aerotolerance regulator N-terminal; Region: BatA; cl06567 1094489003216 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1094489003217 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1094489003218 Protein of unknown function (DUF1355); Region: DUF1355; pfam07090 1094489003219 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1094489003220 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 1094489003221 putative active site [active] 1094489003222 putative metal binding site [ion binding]; other site 1094489003223 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1094489003224 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1094489003225 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1094489003226 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 1094489003227 Ligand Binding Site [chemical binding]; other site 1094489003228 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1094489003229 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1094489003230 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 1094489003231 active site 1094489003232 phosphorylation site [posttranslational modification] 1094489003233 intermolecular recognition site; other site 1094489003234 dimerization interface [polypeptide binding]; other site 1094489003235 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 1094489003236 DNA binding site [nucleotide binding] 1094489003237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 1094489003238 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 1094489003239 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1094489003240 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 1094489003241 inhibitor-cofactor binding pocket; inhibition site 1094489003242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094489003243 catalytic residue [active] 1094489003244 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1094489003245 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1094489003246 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1094489003247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1094489003248 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1094489003249 Walker A/P-loop; other site 1094489003250 ATP binding site [chemical binding]; other site 1094489003251 Q-loop/lid; other site 1094489003252 ABC transporter signature motif; other site 1094489003253 Walker B; other site 1094489003254 D-loop; other site 1094489003255 H-loop/switch region; other site 1094489003256 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1094489003257 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1094489003258 Walker A/P-loop; other site 1094489003259 ATP binding site [chemical binding]; other site 1094489003260 Q-loop/lid; other site 1094489003261 ABC transporter signature motif; other site 1094489003262 Walker B; other site 1094489003263 D-loop; other site 1094489003264 H-loop/switch region; other site 1094489003265 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1094489003266 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1094489003267 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1094489003268 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1094489003269 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1094489003270 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 1094489003271 dimer interface [polypeptide binding]; other site 1094489003272 conserved gate region; other site 1094489003273 putative PBP binding loops; other site 1094489003274 ABC-ATPase subunit interface; other site 1094489003275 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 1094489003276 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1094489003277 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 1094489003278 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1094489003279 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 1094489003280 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1094489003281 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1094489003282 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1094489003283 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 1094489003284 generic binding surface II; other site 1094489003285 generic binding surface I; other site 1094489003286 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 1094489003287 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1094489003288 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 1094489003289 Ligand binding site [chemical binding]; other site 1094489003290 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1094489003291 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1094489003292 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 1094489003293 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1094489003294 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1094489003295 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1094489003296 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1094489003297 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 1094489003298 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1094489003299 hypothetical protein; Reviewed; Region: PRK12497 1094489003300 Predicted methyltransferases [General function prediction only]; Region: COG0313 1094489003301 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1094489003302 putative SAM binding site [chemical binding]; other site 1094489003303 putative homodimer interface [polypeptide binding]; other site 1094489003304 antiporter inner membrane protein; Provisional; Region: PRK11670 1094489003305 Domain of unknown function DUF59; Region: DUF59; pfam01883 1094489003306 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 1094489003307 Walker A motif; other site 1094489003308 ribonuclease P; Reviewed; Region: rnpA; PRK01313 1094489003309 membrane protein insertase; Provisional; Region: PRK01318 1094489003310 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1094489003311 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1094489003312 G1 box; other site 1094489003313 GTP/Mg2+ binding site [chemical binding]; other site 1094489003314 Switch I region; other site 1094489003315 G2 box; other site 1094489003316 G3 box; other site 1094489003317 Switch II region; other site 1094489003318 G4 box; other site 1094489003319 G5 box; other site 1094489003320 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1094489003321 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 1094489003322 C-terminal domain interface [polypeptide binding]; other site 1094489003323 GSH binding site (G-site) [chemical binding]; other site 1094489003324 dimer interface [polypeptide binding]; other site 1094489003325 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1094489003326 N-terminal domain interface [polypeptide binding]; other site 1094489003327 dimer interface [polypeptide binding]; other site 1094489003328 substrate binding pocket (H-site) [chemical binding]; other site 1094489003329 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1094489003330 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1094489003331 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1094489003332 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 1094489003333 catalytic core [active] 1094489003334 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 1094489003335 non-specific DNA binding site [nucleotide binding]; other site 1094489003336 salt bridge; other site 1094489003337 sequence-specific DNA binding site [nucleotide binding]; other site 1094489003338 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 1094489003339 S-adenosylmethionine binding site [chemical binding]; other site 1094489003340 AntA/AntB antirepressor; Region: AntA; cl01430 1094489003341 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1094489003342 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1094489003343 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 1094489003344 catalytic residues [active] 1094489003345 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094489003346 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1094489003347 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1094489003348 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1094489003349 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1094489003350 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1094489003351 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1094489003352 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1094489003353 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1094489003354 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1094489003355 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 1094489003356 non-specific DNA binding site [nucleotide binding]; other site 1094489003357 salt bridge; other site 1094489003358 sequence-specific DNA binding site [nucleotide binding]; other site 1094489003359 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1094489003360 Phage Tail Collar Domain; Region: Collar; pfam07484 1094489003361 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1094489003362 Baseplate J-like protein; Region: Baseplate_J; cl01294 1094489003363 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1094489003364 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1094489003365 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1094489003366 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1094489003367 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1094489003368 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1094489003369 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1094489003370 tandem repeat interface [polypeptide binding]; other site 1094489003371 oligomer interface [polypeptide binding]; other site 1094489003372 active site residues [active] 1094489003373 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 1094489003374 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1094489003375 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1094489003376 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 1094489003377 putative active site [active] 1094489003378 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1094489003379 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 1094489003380 dimer interface [polypeptide binding]; other site 1094489003381 ssDNA binding site [nucleotide binding]; other site 1094489003382 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094489003383 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1094489003384 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 1094489003385 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 1094489003386 active site 1094489003387 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 1094489003388 phosphodiesterase; Provisional; Region: PRK12704 1094489003389 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 1094489003390 Catalytic site [active] 1094489003391 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 1094489003392 Predicted transcriptional regulator [Transcription]; Region: COG2932 1094489003393 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 1094489003394 Catalytic site [active] 1094489003395 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 1094489003396 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 1094489003397 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1094489003398 Walker A motif; other site 1094489003399 ATP binding site [chemical binding]; other site 1094489003400 Walker B motif; other site 1094489003401 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1094489003402 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1094489003403 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 1094489003404 active site 1094489003405 catalytic residues [active] 1094489003406 DNA binding site [nucleotide binding] 1094489003407 Int/Topo IB signature motif; other site 1094489003408 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 1094489003409 putative substrate translocation pore; other site 1094489003410 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1094489003411 major capsid protein; Region: PHA00665 1094489003412 putative protease; Region: PHA00666 1094489003413 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 1094489003414 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1094489003415 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 1094489003416 amidase catalytic site [active] 1094489003417 Zn binding residues [ion binding]; other site 1094489003418 substrate binding site [chemical binding]; other site 1094489003419 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1094489003420 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 1094489003421 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cd00890 1094489003422 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1094489003423 tartrate dehydrogenase; Region: TTC; TIGR02089 1094489003424 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1094489003425 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1094489003426 putative MPT binding site; other site 1094489003427 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1094489003428 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 1094489003429 putative substrate translocation pore; other site 1094489003430 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 1094489003431 metal binding site 2 [ion binding]; metal-binding site 1094489003432 putative DNA binding helix; other site 1094489003433 metal binding site 1 [ion binding]; metal-binding site 1094489003434 dimer interface [polypeptide binding]; other site 1094489003435 structural Zn2+ binding site [ion binding]; other site 1094489003436 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1094489003437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1094489003438 HlyD family secretion protein; Region: HlyD_3; pfam13437 1094489003439 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1094489003440 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 1094489003441 putative substrate translocation pore; other site 1094489003442 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 1094489003443 Predicted acetyltransferase [General function prediction only]; Region: COG3153 1094489003444 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1094489003445 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1094489003446 dimer interface [polypeptide binding]; other site 1094489003447 active site 1094489003448 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1094489003449 catalytic residues [active] 1094489003450 substrate binding site [chemical binding]; other site 1094489003451 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1094489003452 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1094489003453 active site residue [active] 1094489003454 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1094489003455 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 1094489003456 FAD binding pocket [chemical binding]; other site 1094489003457 FAD binding motif [chemical binding]; other site 1094489003458 phosphate binding motif [ion binding]; other site 1094489003459 beta-alpha-beta structure motif; other site 1094489003460 NAD binding pocket [chemical binding]; other site 1094489003461 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1094489003462 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1094489003463 active site 1094489003464 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1094489003465 dimer interface [polypeptide binding]; other site 1094489003466 substrate binding site [chemical binding]; other site 1094489003467 catalytic residues [active] 1094489003468 glycine dehydrogenase; Provisional; Region: PRK05367 1094489003469 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 1094489003470 tetramer interface [polypeptide binding]; other site 1094489003471 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094489003472 catalytic residue [active] 1094489003473 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 1094489003474 tetramer interface [polypeptide binding]; other site 1094489003475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1094489003476 catalytic residue [active] 1094489003477 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 1094489003478 lipoyl attachment site [posttranslational modification]; other site 1094489003479 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1094489003480 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1094489003481 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1094489003482 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1094489003483 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1094489003484 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1094489003485 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1094489003486 Bacterial SH3 domain; Region: SH3_3; pfam08239 1094489003487 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1094489003488 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1094489003489 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1094489003490 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1094489003491 Walker A/P-loop; other site 1094489003492 ATP binding site [chemical binding]; other site 1094489003493 Q-loop/lid; other site 1094489003494 ABC transporter signature motif; other site 1094489003495 Walker B; other site 1094489003496 D-loop; other site 1094489003497 H-loop/switch region; other site 1094489003498 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 1094489003499 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 1094489003500 ABC-ATPase subunit interface; other site 1094489003501 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 1094489003502 putative active site [active] 1094489003503 putative catalytic site [active] 1094489003504 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1094489003505 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1094489003506 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1094489003507 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1094489003508 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 1094489003509 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094489003510 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094489003511 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 1094489003512 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094489003513 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094489003514 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094489003515 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094489003516 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094489003517 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094489003518 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 1094489003519 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094489003520 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094489003521 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1094489003522 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1094489003523 putative ligand binding residues [chemical binding]; other site 1094489003524 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 1094489003525 ABC-ATPase subunit interface; other site 1094489003526 dimer interface [polypeptide binding]; other site 1094489003527 putative PBP binding regions; other site 1094489003528 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1094489003529 ABC-ATPase subunit interface; other site 1094489003530 dimer interface [polypeptide binding]; other site 1094489003531 putative PBP binding regions; other site 1094489003532 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1094489003533 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1094489003534 Walker A/P-loop; other site 1094489003535 ATP binding site [chemical binding]; other site 1094489003536 Q-loop/lid; other site 1094489003537 ABC transporter signature motif; other site 1094489003538 Walker B; other site 1094489003539 D-loop; other site 1094489003540 H-loop/switch region; other site 1094489003541 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094489003542 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094489003543 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1094489003544 Autotransporter beta-domain; Region: Autotransporter; smart00869 1094489003545 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1094489003546 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1094489003547 active site 1094489003548 Riboflavin kinase; Region: Flavokinase; smart00904 1094489003549 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1094489003550 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 1094489003551 active site 1094489003552 motif I; other site 1094489003553 motif II; other site 1094489003554 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 1094489003555 motif II; other site 1094489003556 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1094489003557 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1094489003558 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1094489003559 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1094489003560 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1094489003561 active site 1094489003562 HIGH motif; other site 1094489003563 dimer interface [polypeptide binding]; other site 1094489003564 KMSKS motif; other site 1094489003565 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 1094489003566 Ligand Binding Site [chemical binding]; other site 1094489003567 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1094489003568 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1094489003569 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1094489003570 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1094489003571 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 1094489003572 ring oligomerisation interface [polypeptide binding]; other site 1094489003573 ATP/Mg binding site [chemical binding]; other site 1094489003574 stacking interactions; other site 1094489003575 hinge regions; other site 1094489003576 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 1094489003577 oligomerisation interface [polypeptide binding]; other site 1094489003578 mobile loop; other site 1094489003579 roof hairpin; other site 1094489003580 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1094489003581 Class II fumarases; Region: Fumarase_classII; cd01362 1094489003582 active site 1094489003583 tetramer interface [polypeptide binding]; other site 1094489003584 phosphoglucomutase; Region: PLN02307 1094489003585 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 1094489003586 substrate binding site [chemical binding]; other site 1094489003587 dimer interface [polypeptide binding]; other site 1094489003588 active site 1094489003589 metal binding site [ion binding]; metal-binding site 1094489003590 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 1094489003591 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1094489003592 catalytic triad [active] 1094489003593 dimer interface [polypeptide binding]; other site 1094489003594 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1094489003595 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 1094489003596 dimer interface [polypeptide binding]; other site 1094489003597 motif 1; other site 1094489003598 active site 1094489003599 motif 2; other site 1094489003600 motif 3; other site 1094489003601 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 1094489003602 anticodon binding site; other site 1094489003603 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 1094489003604 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cd00890 1094489003605 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1094489003606 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1094489003607 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1094489003608 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1094489003609 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1094489003610 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 1094489003611 non-specific DNA binding site [nucleotide binding]; other site 1094489003612 salt bridge; other site 1094489003613 sequence-specific DNA binding site [nucleotide binding]; other site 1094489003614 hypothetical protein; Provisional; Region: PRK06518 1094489003615 Staphylococcal nuclease homologues; Region: SNc; smart00318 1094489003616 Catalytic site; other site 1094489003617 TrbC/VIRB2 family; Region: TrbC; pfam04956 1094489003618 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 1094489003619 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1094489003620 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1094489003621 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1094489003622 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1094489003623 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1094489003624 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1094489003625 VirB7 interaction site; other site 1094489003626 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1094489003627 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1094489003628 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 1094489003629 Walker A motif; other site 1094489003630 hexamer interface [polypeptide binding]; other site 1094489003631 ATP binding site [chemical binding]; other site 1094489003632 Walker B motif; other site 1094489003633 4-oxalocrotonate tautomerase family enzyme; Region: taut; TIGR00013 1094489003634 active site 1 [active] 1094489003635 dimer interface [polypeptide binding]; other site 1094489003636 hexamer interface [polypeptide binding]; other site 1094489003637 active site 2 [active] 1094489003638 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 1094489003639 putative substrate translocation pore; other site 1094489003640 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1094489003641 Peptidase family M23; Region: Peptidase_M23; pfam01551 1094489003642 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1094489003643 Histidine kinase; Region: HisKA_2; pfam07568 1094489003644 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1094489003645 ATP binding site [chemical binding]; other site 1094489003646 Mg2+ binding site [ion binding]; other site 1094489003647 G-X-G motif; other site 1094489003648 RNA polymerase sigma factor; Provisional; Region: PRK12547 1094489003649 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1094489003650 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 1094489003651 DNA binding residues [nucleotide binding] 1094489003652 two-component response regulator; Provisional; Region: PRK09191 1094489003653 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1094489003654 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 1094489003655 active site 1094489003656 phosphorylation site [posttranslational modification] 1094489003657 intermolecular recognition site; other site 1094489003658 dimerization interface [polypeptide binding]; other site 1094489003659 PAS fold; Region: PAS_4; pfam08448 1094489003660 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1094489003661 HWE histidine kinase; Region: HWE_HK; pfam07536 1094489003662 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1094489003663 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1094489003664 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1094489003665 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1094489003666 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 1094489003667 catalytic residues [active] 1094489003668 Phage Tail Collar Domain; Region: Collar; pfam07484 1094489003669 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1094489003670 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 1094489003671 Phage terminase large subunit; Region: Terminase_3; cl12054 1094489003672 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1094489003673 Clp amino terminal domain; Region: Clp_N; pfam02861 1094489003674 Clp amino terminal domain; Region: Clp_N; pfam02861 1094489003675 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 1094489003676 Walker A motif; other site 1094489003677 ATP binding site [chemical binding]; other site 1094489003678 Walker B motif; other site 1094489003679 arginine finger; other site 1094489003680 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 1094489003681 Walker A motif; other site 1094489003682 ATP binding site [chemical binding]; other site 1094489003683 Walker B motif; other site 1094489003684 arginine finger; other site 1094489003685 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1094489003686 zinc-binding protein; Provisional; Region: PRK01343 1094489003687 Maf-like protein; Region: Maf; pfam02545 1094489003688 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 1094489003689 active site 1094489003690 dimer interface [polypeptide binding]; other site 1094489003691 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 1094489003692 rRNA binding site [nucleotide binding]; other site 1094489003693 predicted 30S ribosome binding site; other site 1094489003694 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1094489003695 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1094489003696 ATP-grasp domain; Region: ATP-grasp; pfam02222 1094489003697 TPR repeat; Region: TPR_11; pfam13414 1094489003698 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 1094489003699 TPR motif; other site 1094489003700 binding surface 1094489003701 TPR repeat; Region: TPR_11; pfam13414 1094489003702 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1094489003703 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1094489003704 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1094489003705 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1094489003706 putative active site [active] 1094489003707 metal binding site [ion binding]; metal-binding site 1094489003708 homodimer binding site [polypeptide binding]; other site 1094489003709 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1094489003710 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 1094489003711 hinge; other site 1094489003712 active site 1094489003713 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1094489003714 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 1094489003715 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1094489003716 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 1094489003717 active site 1094489003718 metal binding site [ion binding]; metal-binding site 1094489003719 interdomain interaction site; other site 1094489003720 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 1094489003721 AAA domain; Region: AAA_25; pfam13481 1094489003722 Walker A motif; other site 1094489003723 ATP binding site [chemical binding]; other site 1094489003724 Walker B motif; other site 1094489003725 Predicted membrane protein [Function unknown]; Region: COG1238 1094489003726 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1094489003727 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1094489003728 CCC1-related protein family; Region: CCC1_like_1; cd02437 1094489003729 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1094489003730 trimer interface [polypeptide binding]; other site 1094489003731 active site 1094489003732 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1094489003733 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1094489003734 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1094489003735 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1094489003736 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1094489003737 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 1094489003738 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 1094489003739 active site 1094489003740 substrate binding site [chemical binding]; other site 1094489003741 metal binding site [ion binding]; metal-binding site 1094489003742 FtsH Extracellular; Region: FtsH_ext; pfam06480 1094489003743 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1094489003744 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 1094489003745 Walker A motif; other site 1094489003746 ATP binding site [chemical binding]; other site 1094489003747 Walker B motif; other site 1094489003748 arginine finger; other site 1094489003749 Peptidase family M41; Region: Peptidase_M41; pfam01434 1094489003750 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1094489003751 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 1094489003752 Ligand Binding Site [chemical binding]; other site 1094489003753 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1094489003754 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1094489003755 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1094489003756 ligand binding site [chemical binding]; other site 1094489003757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1094489003758 hypothetical protein; Validated; Region: PRK00110 1094489003759 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 1094489003760 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1094489003761 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1094489003762 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 1094489003763 Walker A/P-loop; other site 1094489003764 ATP binding site [chemical binding]; other site 1094489003765 Q-loop/lid; other site 1094489003766 ABC transporter signature motif; other site 1094489003767 Walker B; other site 1094489003768 D-loop; other site 1094489003769 H-loop/switch region; other site 1094489003770 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1094489003771 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 1094489003772 active site 1094489003773 dimerization interface [polypeptide binding]; other site 1094489003774 elongation factor P; Validated; Region: PRK00529 1094489003775 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1094489003776 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 1094489003777 RNA binding site [nucleotide binding]; other site 1094489003778 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 1094489003779 RNA binding site [nucleotide binding]; other site 1094489003780 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1094489003781 Sel1-like repeats; Region: SEL1; smart00671 1094489003782 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1094489003783 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 1094489003784 active site 1094489003785 thiamine phosphate binding site [chemical binding]; other site 1094489003786 pyrophosphate binding site [ion binding]; other site 1094489003787 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 1094489003788 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 1094489003789 active site 1094489003790 putative DNA-binding cleft [nucleotide binding]; other site 1094489003791 dimer interface [polypeptide binding]; other site 1094489003792 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1094489003793 RuvA N terminal domain; Region: RuvA_N; pfam01330 1094489003794 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1094489003795 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1094489003796 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 1094489003797 Walker A motif; other site 1094489003798 ATP binding site [chemical binding]; other site 1094489003799 Walker B motif; other site 1094489003800 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1094489003801 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 1094489003802 active site 1094489003803 TolQ protein; Region: tolQ; TIGR02796 1094489003804 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1094489003805 TolR protein; Region: tolR; TIGR02801 1094489003806 translocation protein TolB; Provisional; Region: tolB; PRK05137 1094489003807 TolB amino-terminal domain; Region: TolB_N; pfam04052 1094489003808 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1094489003809 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1094489003810 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 1094489003811 active site 1094489003812 intersubunit interface [polypeptide binding]; other site 1094489003813 catalytic residue [active] 1094489003814 Phosphoglycerate kinase; Region: PGK; pfam00162 1094489003815 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 1094489003816 substrate binding site [chemical binding]; other site 1094489003817 hinge regions; other site 1094489003818 ADP binding site [chemical binding]; other site 1094489003819 catalytic site [active] 1094489003820 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1094489003821 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1094489003822 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1094489003823 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1094489003824 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 1094489003825 TPP-binding site [chemical binding]; other site 1094489003826 dimer interface [polypeptide binding]; other site 1094489003827 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 1094489003828 PYR/PP interface [polypeptide binding]; other site 1094489003829 dimer interface [polypeptide binding]; other site 1094489003830 TPP binding site [chemical binding]; other site 1094489003831 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1094489003832 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 1094489003833 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1094489003834 pyruvate kinase; Provisional; Region: PRK06247 1094489003835 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 1094489003836 domain interfaces; other site 1094489003837 active site 1094489003838 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 1094489003839 hypothetical protein; Provisional; Region: PRK13694 1094489003840 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1094489003841 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094489003842 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1094489003843 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1094489003844 Thiamine pyrophosphokinase; Region: TPK; cd07995 1094489003845 active site 1094489003846 dimerization interface [polypeptide binding]; other site 1094489003847 thiamine binding site [chemical binding]; other site 1094489003848 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1094489003849 Peptidase family M48; Region: Peptidase_M48; pfam01435 1094489003850 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 1094489003851 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1094489003852 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 1094489003853 DNA binding residues [nucleotide binding] 1094489003854 Ferredoxin [Energy production and conversion]; Region: COG1146 1094489003855 4Fe-4S binding domain; Region: Fer4; pfam00037 1094489003856 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1094489003857 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1094489003858 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1094489003859 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1094489003860 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1094489003861 substrate binding pocket [chemical binding]; other site 1094489003862 chain length determination region; other site 1094489003863 substrate-Mg2+ binding site; other site 1094489003864 catalytic residues [active] 1094489003865 aspartate-rich region 1; other site 1094489003866 active site lid residues [active] 1094489003867 aspartate-rich region 2; other site 1094489003868 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1094489003869 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1094489003870 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1094489003871 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 1094489003872 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1094489003873 gamma subunit interface [polypeptide binding]; other site 1094489003874 epsilon subunit interface [polypeptide binding]; other site 1094489003875 LBP interface [polypeptide binding]; other site 1094489003876 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1094489003877 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1094489003878 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 1094489003879 alpha subunit interaction interface [polypeptide binding]; other site 1094489003880 Walker A motif; other site 1094489003881 ATP binding site [chemical binding]; other site 1094489003882 Walker B motif; other site 1094489003883 inhibitor binding site; inhibition site 1094489003884 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1094489003885 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1094489003886 core domain interface [polypeptide binding]; other site 1094489003887 delta subunit interface [polypeptide binding]; other site 1094489003888 epsilon subunit interface [polypeptide binding]; other site 1094489003889 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1094489003890 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1094489003891 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 1094489003892 beta subunit interaction interface [polypeptide binding]; other site 1094489003893 Walker A motif; other site 1094489003894 ATP binding site [chemical binding]; other site 1094489003895 Walker B motif; other site 1094489003896 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1094489003897 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1094489003898 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1094489003899 primosome assembly protein PriA; Validated; Region: PRK05580 1094489003900 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 1094489003901 ATP binding site [chemical binding]; other site 1094489003902 putative Mg++ binding site [ion binding]; other site 1094489003903 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1094489003904 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1094489003905 active site 1094489003906 intersubunit interactions; other site 1094489003907 catalytic residue [active] 1094489003908 Lipopolysaccharide-assembly; Region: LptE; cl01125 1094489003909 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1094489003910 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1094489003911 HIGH motif; other site 1094489003912 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1094489003913 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1094489003914 active site 1094489003915 KMSKS motif; other site 1094489003916 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1094489003917 tRNA binding surface [nucleotide binding]; other site 1094489003918 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1094489003919 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1094489003920 catalytic residue [active] 1094489003921 acetyl-CoA synthetase; Provisional; Region: PRK00174 1094489003922 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1094489003923 active site 1094489003924 CoA binding site [chemical binding]; other site 1094489003925 acyl-activating enzyme (AAE) consensus motif; other site 1094489003926 AMP binding site [chemical binding]; other site 1094489003927 acetate binding site [chemical binding]; other site 1094489003928 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1094489003929 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1094489003930 Walker A/P-loop; other site 1094489003931 ATP binding site [chemical binding]; other site 1094489003932 Q-loop/lid; other site 1094489003933 ABC transporter signature motif; other site 1094489003934 Walker B; other site 1094489003935 D-loop; other site 1094489003936 H-loop/switch region; other site 1094489003937 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1094489003938 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1094489003939 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 1094489003940 putative active site [active] 1094489003941 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1094489003942 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1094489003943 Walker A/P-loop; other site 1094489003944 ATP binding site [chemical binding]; other site 1094489003945 Q-loop/lid; other site 1094489003946 ABC transporter signature motif; other site 1094489003947 Walker B; other site 1094489003948 D-loop; other site 1094489003949 H-loop/switch region; other site 1094489003950 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1094489003951 FtsX-like permease family; Region: FtsX; pfam02687 1094489003952 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1094489003953 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1094489003954 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 1094489003955 HlyD family secretion protein; Region: HlyD_3; pfam13437 1094489003956 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1094489003957 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 1094489003958 putative catalytic site [active] 1094489003959 putative phosphate binding site [ion binding]; other site 1094489003960 active site 1094489003961 metal binding site A [ion binding]; metal-binding site 1094489003962 DNA binding site [nucleotide binding] 1094489003963 putative AP binding site [nucleotide binding]; other site 1094489003964 putative metal binding site B [ion binding]; other site 1094489003965 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1094489003966 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1094489003967 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1094489003968 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1094489003969 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1094489003970 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1094489003971 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 1094489003972 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1094489003973 H-NS histone family; Region: Histone_HNS; pfam00816 1094489003974 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1094489003975 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 1094489003976 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1094489003977 catalytic residue [active] 1094489003978 TrbC/VIRB2 family; Region: TrbC; pfam04956 1094489003979 TrbC/VIRB2 family; Region: TrbC; pfam04956 1094489003980 Type IV secretory pathway, VirB3-like protein; Region: VirB3; pfam05101 1094489003981 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1094489003982 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1094489003983 Type IV secretion system proteins; Region: T4SS; pfam07996 1094489003984 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1094489003985 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1094489003986 Type IV secretion system proteins; Region: T4SS; pfam07996 1094489003987 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1094489003988 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1094489003989 VirB8 protein; Region: VirB8; pfam04335 1094489003990 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1094489003991 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1094489003992 VirB7 interaction site; other site 1094489003993 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1094489003994 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1094489003995 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 1094489003996 Walker A motif; other site 1094489003997 hexamer interface [polypeptide binding]; other site 1094489003998 ATP binding site [chemical binding]; other site 1094489003999 Walker B motif; other site 1094489004000 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1094489004001 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1094489004002 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1094489004003 L-aspartate oxidase; Provisional; Region: PRK06175 1094489004004 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1094489004005 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 1094489004006 putative SdhC subunit interface [polypeptide binding]; other site 1094489004007 putative proximal heme binding site [chemical binding]; other site 1094489004008 putative Iron-sulfur protein interface [polypeptide binding]; other site 1094489004009 putative proximal quinone binding site; other site 1094489004010 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 1094489004011 Iron-sulfur protein interface; other site 1094489004012 proximal quinone binding site [chemical binding]; other site 1094489004013 SdhD (CybS) interface [polypeptide binding]; other site 1094489004014 proximal heme binding site [chemical binding]; other site 1094489004015 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1094489004016 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1094489004017 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1094489004018 RimM N-terminal domain; Region: RimM; pfam01782 1094489004019 PRC-barrel domain; Region: PRC; pfam05239 1094489004020 SapC; Region: SapC; pfam07277 1094489004021 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1094489004022 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 1094489004023 active site 1094489004024 DNA binding site [nucleotide binding] 1094489004025 Int/Topo IB signature motif; other site 1094489004026 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1094489004027 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 1094489004028 HSP70 interaction site [polypeptide binding]; other site 1094489004029 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1094489004030 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1094489004031 AAA domain; Region: AAA_17; pfam13207 1094489004032 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1094489004033 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 1094489004034 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 1094489004035 metal ion-dependent adhesion site (MIDAS); other site 1094489004036 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 1094489004037 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1094489004038 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 1094489004039 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 1094489004040 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1094489004041 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 1094489004042 purine monophosphate binding site [chemical binding]; other site 1094489004043 dimer interface [polypeptide binding]; other site 1094489004044 putative catalytic residues [active] 1094489004045 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1094489004046 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 1094489004047 NusB family; Region: NusB; pfam01029 1094489004048 putative RNA binding site [nucleotide binding]; other site 1094489004049 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1094489004050 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 1094489004051 S-adenosylmethionine binding site [chemical binding]; other site 1094489004052 heat shock protein HtpX; Provisional; Region: PRK01345 1094489004053 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1094489004054 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1094489004055 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1094489004056 Chorismate mutase type II; Region: CM_2; cl00693 1094489004057 signal recognition particle protein; Provisional; Region: PRK10867 1094489004058 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1094489004059 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 1094489004060 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1094489004061 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 1094489004062 active site clefts [active] 1094489004063 zinc binding site [ion binding]; other site 1094489004064 dimer interface [polypeptide binding]; other site 1094489004065 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1094489004066 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1094489004067 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1094489004068 catalytic triad [active] 1094489004069 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 1094489004070 HemY protein N-terminus; Region: HemY_N; pfam07219 1094489004071 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 1094489004072 TPR motif; other site 1094489004073 binding surface 1094489004074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 1094489004075 UGMP family protein; Validated; Region: PRK09604 1094489004076 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1094489004077 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1094489004078 EVE domain; Region: EVE; cl00728 1094489004079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1094489004080 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 1094489004081 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1094489004082 catalytic residues [active] 1094489004083 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1094489004084 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1094489004085 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1094489004086 active site 1094489004087 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1094489004088 substrate binding site [chemical binding]; other site 1094489004089 catalytic residues [active] 1094489004090 dimer interface [polypeptide binding]; other site 1094489004091 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 1094489004092 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1094489004093 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 1094489004094 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1094489004095 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1094489004096 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1094489004097 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1094489004098 Walker A/P-loop; other site 1094489004099 ATP binding site [chemical binding]; other site 1094489004100 Q-loop/lid; other site 1094489004101 ABC transporter signature motif; other site 1094489004102 Walker B; other site 1094489004103 D-loop; other site 1094489004104 H-loop/switch region; other site 1094489004105 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1094489004106 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 1094489004107 TM-ABC transporter signature motif; other site 1094489004108 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 1094489004109 zinc binding site [ion binding]; other site 1094489004110 putative ligand binding site [chemical binding]; other site 1094489004111 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 1094489004112 dimer interface [polypeptide binding]; other site 1094489004113 substrate binding site [chemical binding]; other site 1094489004114 ATP binding site [chemical binding]; other site 1094489004115 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1094489004116 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1094489004117 putative acyl-acceptor binding pocket; other site 1094489004118 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1094489004119 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1094489004120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1094489004121 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1094489004122 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1094489004123 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1094489004124 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1094489004125 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 1094489004126 active site 1094489004127 DNA binding site [nucleotide binding] 1094489004128 Int/Topo IB signature motif; other site 1094489004129 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1094489004130 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1094489004131 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1094489004132 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1094489004133 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1094489004134 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1094489004135 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1094489004136 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1094489004137 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1094489004138 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1094489004139 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1094489004140 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1094489004141 BA14K-like protein; Region: BA14K; pfam07886 1094489004142 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1094489004143 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1094489004144 dimer interface [polypeptide binding]; other site 1094489004145 active site 1094489004146 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1094489004147 catalytic residues [active] 1094489004148 substrate binding site [chemical binding]; other site 1094489004149 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1094489004150 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1094489004151 NAD(P) binding pocket [chemical binding]; other site 1094489004152 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1094489004153 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1094489004154 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1094489004155 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1094489004156 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1094489004157 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 1094489004158 E3 interaction surface; other site 1094489004159 lipoyl attachment site [posttranslational modification]; other site 1094489004160 e3 binding domain; Region: E3_binding; pfam02817 1094489004161 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1094489004162 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1094489004163 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 1094489004164 TPP-binding site [chemical binding]; other site 1094489004165 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1094489004166 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1094489004167 CoA binding domain; Region: CoA_binding; smart00881 1094489004168 CoA-ligase; Region: Ligase_CoA; pfam00549 1094489004169 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1094489004170 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1094489004171 CoA-ligase; Region: Ligase_CoA; pfam00549 1094489004172 malate dehydrogenase; Reviewed; Region: PRK06223 1094489004173 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1094489004174 NAD(P) binding site [chemical binding]; other site 1094489004175 dimer interface [polypeptide binding]; other site 1094489004176 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1094489004177 substrate binding site [chemical binding]; other site 1094489004178 Predicted ATPase [General function prediction only]; Region: COG1485 1094489004179 Protease inhibitor Inh; Region: Inh; pfam02974 1094489004180 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1094489004181 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1094489004182 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1094489004183 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1094489004184 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 1094489004185 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 1094489004186 FeS/SAM binding site; other site 1094489004187 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1094489004188 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1094489004189 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 1094489004190 P loop; other site 1094489004191 GTP binding site [chemical binding]; other site 1094489004192 intracellular septation protein A; Reviewed; Region: PRK00259 1094489004193 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1094489004194 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1094489004195 ParB-like nuclease domain; Region: ParBc; pfam02195 1094489004196 KorB domain; Region: KorB; pfam08535 1094489004197 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1094489004198 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 1094489004199 P-loop; other site 1094489004200 Magnesium ion binding site [ion binding]; other site 1094489004201 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 1094489004202 Magnesium ion binding site [ion binding]; other site 1094489004203 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1094489004204 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1094489004205 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1094489004206 L-aspartate oxidase; Provisional; Region: PRK06175 1094489004207 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1094489004208 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1094489004209 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1094489004210 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1094489004211 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1094489004212 G1 box; other site 1094489004213 GTP/Mg2+ binding site [chemical binding]; other site 1094489004214 Switch I region; other site 1094489004215 G2 box; other site 1094489004216 Switch II region; other site 1094489004217 G3 box; other site 1094489004218 G4 box; other site 1094489004219 G5 box; other site 1094489004220 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1094489004221 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1094489004222 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1094489004223 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 1094489004224 RNA binding site [nucleotide binding]; other site 1094489004225 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 1094489004226 multimer interface [polypeptide binding]; other site 1094489004227 Walker A motif; other site 1094489004228 ATP binding site [chemical binding]; other site 1094489004229 Walker B motif; other site