-- dump date 20140619_024118 -- class Genbank::misc_feature -- table misc_feature_note -- id note 903503000001 GTP-binding protein LepA; Provisional; Region: PRK05433 903503000002 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 903503000003 G1 box; other site 903503000004 putative GEF interaction site [polypeptide binding]; other site 903503000005 GTP/Mg2+ binding site [chemical binding]; other site 903503000006 Switch I region; other site 903503000007 G2 box; other site 903503000008 G3 box; other site 903503000009 Switch II region; other site 903503000010 G4 box; other site 903503000011 G5 box; other site 903503000012 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 903503000013 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 903503000014 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 903503000015 signal peptidase I; Provisional; Region: PRK10861 903503000016 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 903503000017 Catalytic site [active] 903503000018 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 903503000019 ribonuclease III; Reviewed; Region: rnc; PRK00102 903503000020 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 903503000021 dimerization interface [polypeptide binding]; other site 903503000022 active site 903503000023 metal binding site [ion binding]; metal-binding site 903503000024 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 903503000025 dsRNA binding site [nucleotide binding]; other site 903503000026 GTPase Era; Reviewed; Region: era; PRK00089 903503000027 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 903503000028 G1 box; other site 903503000029 GTP/Mg2+ binding site [chemical binding]; other site 903503000030 Switch I region; other site 903503000031 G2 box; other site 903503000032 Switch II region; other site 903503000033 G3 box; other site 903503000034 G4 box; other site 903503000035 G5 box; other site 903503000036 KH domain; Region: KH_2; pfam07650 903503000037 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 903503000038 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 903503000039 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 903503000040 trmE is a tRNA modification GTPase; Region: trmE; cd04164 903503000041 G1 box; other site 903503000042 GTP/Mg2+ binding site [chemical binding]; other site 903503000043 Switch I region; other site 903503000044 G2 box; other site 903503000045 Switch II region; other site 903503000046 G3 box; other site 903503000047 G4 box; other site 903503000048 G5 box; other site 903503000049 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 903503000050 membrane protein insertase; Provisional; Region: PRK01318 903503000051 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 903503000052 ribonuclease P; Reviewed; Region: rnpA; PRK01732 903503000053 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 903503000054 primosome assembly protein PriA; Validated; Region: PRK05580 903503000055 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 903503000056 ATP binding site [chemical binding]; other site 903503000057 putative Mg++ binding site [ion binding]; other site 903503000058 helicase superfamily c-terminal domain; Region: HELICc; smart00490 903503000059 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 903503000060 DNA polymerase III subunit beta; Validated; Region: PRK05643 903503000061 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 903503000062 putative DNA binding surface [nucleotide binding]; other site 903503000063 dimer interface [polypeptide binding]; other site 903503000064 beta-clamp/clamp loader binding surface; other site 903503000065 beta-clamp/translesion DNA polymerase binding surface; other site 903503000066 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 903503000067 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 903503000068 ATP binding site [chemical binding]; other site 903503000069 Mg2+ binding site [ion binding]; other site 903503000070 G-X-G motif; other site 903503000071 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 903503000072 anchoring element; other site 903503000073 dimer interface [polypeptide binding]; other site 903503000074 ATP binding site [chemical binding]; other site 903503000075 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 903503000076 active site 903503000077 putative metal-binding site [ion binding]; other site 903503000078 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 903503000079 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 903503000080 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 903503000081 active site residue [active] 903503000082 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 903503000083 DNA-binding site [nucleotide binding]; DNA binding site 903503000084 RNA-binding motif; other site 903503000085 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 903503000086 G1 box; other site 903503000087 GTP/Mg2+ binding site [chemical binding]; other site 903503000088 Switch I region; other site 903503000089 G2 box; other site 903503000090 G3 box; other site 903503000091 Switch II region; other site 903503000092 G4 box; other site 903503000093 G5 box; other site 903503000094 replicative DNA helicase; Provisional; Region: PRK08006 903503000095 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 903503000096 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 903503000097 Walker A motif; other site 903503000098 ATP binding site [chemical binding]; other site 903503000099 Walker B motif; other site 903503000100 DNA binding loops [nucleotide binding] 903503000101 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 903503000102 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 903503000103 dimer interface [polypeptide binding]; other site 903503000104 ssDNA binding site [nucleotide binding]; other site 903503000105 tetramer (dimer of dimers) interface [polypeptide binding]; other site 903503000106 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 903503000107 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 903503000108 active site 903503000109 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 903503000110 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 903503000111 domain interfaces; other site 903503000112 active site 903503000113 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 903503000114 Part of AAA domain; Region: AAA_19; pfam13245 903503000115 Family description; Region: UvrD_C_2; pfam13538 903503000116 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 903503000117 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 903503000118 active site 903503000119 HIGH motif; other site 903503000120 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 903503000121 KMSKS motif; other site 903503000122 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 903503000123 tRNA binding surface [nucleotide binding]; other site 903503000124 anticodon binding site; other site 903503000125 heat shock protein HspQ; Provisional; Region: PRK14129 903503000126 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 903503000127 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 903503000128 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 903503000129 active site 903503000130 NTP binding site [chemical binding]; other site 903503000131 metal binding triad [ion binding]; metal-binding site 903503000132 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 903503000133 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 903503000134 Zn2+ binding site [ion binding]; other site 903503000135 Mg2+ binding site [ion binding]; other site 903503000136 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 903503000137 putative GSH binding site [chemical binding]; other site 903503000138 catalytic residues [active] 903503000139 ribonuclease T; Provisional; Region: PRK05168 903503000140 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 903503000141 active site 903503000142 catalytic site [active] 903503000143 substrate binding site [chemical binding]; other site 903503000144 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 903503000145 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 903503000146 NAD binding site [chemical binding]; other site 903503000147 homotetramer interface [polypeptide binding]; other site 903503000148 homodimer interface [polypeptide binding]; other site 903503000149 substrate binding site [chemical binding]; other site 903503000150 active site 903503000151 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 903503000152 dimer interface [polypeptide binding]; other site 903503000153 substrate binding site [chemical binding]; other site 903503000154 metal binding sites [ion binding]; metal-binding site 903503000155 putative cation:proton antiport protein; Provisional; Region: PRK10669 903503000156 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 903503000157 TrkA-N domain; Region: TrkA_N; pfam02254 903503000158 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 903503000159 dihydrodipicolinate synthase; Region: dapA; TIGR00674 903503000160 dimer interface [polypeptide binding]; other site 903503000161 active site 903503000162 catalytic residue [active] 903503000163 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 903503000164 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 903503000165 catalytic residues [active] 903503000166 transcription termination factor Rho; Provisional; Region: rho; PRK09376 903503000167 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 903503000168 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 903503000169 RNA binding site [nucleotide binding]; other site 903503000170 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 903503000171 multimer interface [polypeptide binding]; other site 903503000172 Walker A motif; other site 903503000173 ATP binding site [chemical binding]; other site 903503000174 Walker B motif; other site 903503000175 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 903503000176 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 903503000177 nucleotide binding site/active site [active] 903503000178 HIT family signature motif; other site 903503000179 catalytic residue [active] 903503000180 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 903503000181 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 903503000182 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 903503000183 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 903503000184 DNA-binding site [nucleotide binding]; DNA binding site 903503000185 RNA-binding motif; other site 903503000186 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 903503000187 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 903503000188 active site 903503000189 HIGH motif; other site 903503000190 dimer interface [polypeptide binding]; other site 903503000191 KMSKS motif; other site 903503000192 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 903503000193 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 903503000194 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 903503000195 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 903503000196 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 903503000197 SurA N-terminal domain; Region: SurA_N; pfam09312 903503000198 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 903503000199 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 903503000200 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 903503000201 OstA-like protein; Region: OstA; cl00844 903503000202 Organic solvent tolerance protein; Region: OstA_C; pfam04453 903503000203 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 903503000204 trimer interface [polypeptide binding]; other site 903503000205 active site 903503000206 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 903503000207 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 903503000208 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 903503000209 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 903503000210 DNA binding site [nucleotide binding] 903503000211 catalytic residue [active] 903503000212 H2TH interface [polypeptide binding]; other site 903503000213 putative catalytic residues [active] 903503000214 turnover-facilitating residue; other site 903503000215 intercalation triad [nucleotide binding]; other site 903503000216 8OG recognition residue [nucleotide binding]; other site 903503000217 putative reading head residues; other site 903503000218 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 903503000219 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 903503000220 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14961 903503000221 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 903503000222 Walker A motif; other site 903503000223 ATP binding site [chemical binding]; other site 903503000224 Walker B motif; other site 903503000225 arginine finger; other site 903503000226 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 903503000227 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 903503000228 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 903503000229 adenylate kinase; Reviewed; Region: adk; PRK00279 903503000230 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 903503000231 AMP-binding site [chemical binding]; other site 903503000232 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 903503000233 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 903503000234 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 903503000235 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 903503000236 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 903503000237 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 903503000238 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 903503000239 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 903503000240 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 903503000241 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 903503000242 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 903503000243 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 903503000244 4Fe-4S binding domain; Region: Fer4; cl02805 903503000245 4Fe-4S binding domain; Region: Fer4; pfam00037 903503000246 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 903503000247 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 903503000248 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 903503000249 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 903503000250 catalytic loop [active] 903503000251 iron binding site [ion binding]; other site 903503000252 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 903503000253 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 903503000254 [4Fe-4S] binding site [ion binding]; other site 903503000255 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 903503000256 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 903503000257 SLBB domain; Region: SLBB; pfam10531 903503000258 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 903503000259 NADH dehydrogenase subunit E; Validated; Region: PRK07539 903503000260 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 903503000261 putative dimer interface [polypeptide binding]; other site 903503000262 [2Fe-2S] cluster binding site [ion binding]; other site 903503000263 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 903503000264 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 903503000265 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 903503000266 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 903503000267 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 903503000268 rod shape-determining protein MreB; Provisional; Region: PRK13927 903503000269 MreB and similar proteins; Region: MreB_like; cd10225 903503000270 nucleotide binding site [chemical binding]; other site 903503000271 Mg binding site [ion binding]; other site 903503000272 putative protofilament interaction site [polypeptide binding]; other site 903503000273 RodZ interaction site [polypeptide binding]; other site 903503000274 rod shape-determining protein MreC; Region: mreC; TIGR00219 903503000275 rod shape-determining protein MreC; Region: MreC; pfam04085 903503000276 seryl-tRNA synthetase; Provisional; Region: PRK05431 903503000277 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 903503000278 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 903503000279 dimer interface [polypeptide binding]; other site 903503000280 active site 903503000281 motif 1; other site 903503000282 motif 2; other site 903503000283 motif 3; other site 903503000284 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 903503000285 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 903503000286 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 903503000287 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 903503000288 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 903503000289 ATP-grasp domain; Region: ATP-grasp_4; cl17255 903503000290 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 903503000291 IMP binding site; other site 903503000292 dimer interface [polypeptide binding]; other site 903503000293 interdomain contacts; other site 903503000294 partial ornithine binding site; other site 903503000295 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 903503000296 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 903503000297 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 903503000298 catalytic site [active] 903503000299 subunit interface [polypeptide binding]; other site 903503000300 dihydrodipicolinate reductase; Provisional; Region: PRK00048 903503000301 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 903503000302 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 903503000303 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 903503000304 lipoprotein signal peptidase; Provisional; Region: PRK14787 903503000305 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 903503000306 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 903503000307 active site 903503000308 HIGH motif; other site 903503000309 nucleotide binding site [chemical binding]; other site 903503000310 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 903503000311 active site 903503000312 KMSKS motif; other site 903503000313 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 903503000314 tRNA binding surface [nucleotide binding]; other site 903503000315 anticodon binding site; other site 903503000316 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 903503000317 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 903503000318 chaperone protein DnaJ; Provisional; Region: PRK10767 903503000319 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 903503000320 HSP70 interaction site [polypeptide binding]; other site 903503000321 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 903503000322 substrate binding site [polypeptide binding]; other site 903503000323 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 903503000324 Zn binding sites [ion binding]; other site 903503000325 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 903503000326 dimer interface [polypeptide binding]; other site 903503000327 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 903503000328 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 903503000329 nucleotide binding site [chemical binding]; other site 903503000330 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 903503000331 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 903503000332 CoA-ligase; Region: Ligase_CoA; pfam00549 903503000333 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 903503000334 CoA binding domain; Region: CoA_binding; pfam02629 903503000335 CoA-ligase; Region: Ligase_CoA; pfam00549 903503000336 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 903503000337 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 903503000338 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 903503000339 ATP binding site [chemical binding]; other site 903503000340 Mg2+ binding site [ion binding]; other site 903503000341 G-X-G motif; other site 903503000342 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 903503000343 ATP binding site [chemical binding]; other site 903503000344 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 903503000345 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 903503000346 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 903503000347 Walker A motif; other site 903503000348 ATP binding site [chemical binding]; other site 903503000349 bacterial Hfq-like; Region: Hfq; cd01716 903503000350 hexamer interface [polypeptide binding]; other site 903503000351 Sm1 motif; other site 903503000352 RNA binding site [nucleotide binding]; other site 903503000353 Sm2 motif; other site 903503000354 FtsH protease regulator HflK; Provisional; Region: PRK10930 903503000355 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 903503000356 FtsH protease regulator HflC; Provisional; Region: PRK11029 903503000357 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 903503000358 exoribonuclease R; Provisional; Region: PRK11642 903503000359 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 903503000360 RNB domain; Region: RNB; pfam00773 903503000361 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 903503000362 RNA binding site [nucleotide binding]; other site 903503000363 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 903503000364 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 903503000365 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 903503000366 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 903503000367 catalytic core [active] 903503000368 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 903503000369 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 903503000370 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 903503000371 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 903503000372 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 903503000373 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 903503000374 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 903503000375 eyelet of channel; other site 903503000376 trimer interface [polypeptide binding]; other site 903503000377 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 903503000378 primosomal replication protein N; Provisional; Region: PRK02801 903503000379 generic binding surface II; other site 903503000380 generic binding surface I; other site 903503000381 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 903503000382 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 903503000383 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 903503000384 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 903503000385 6-phosphogluconolactonase; Provisional; Region: PRK11028 903503000386 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 903503000387 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 903503000388 putative active site [active] 903503000389 putative metal binding site [ion binding]; other site 903503000390 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 903503000391 Lumazine binding domain; Region: Lum_binding; pfam00677 903503000392 Lumazine binding domain; Region: Lum_binding; pfam00677 903503000393 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 903503000394 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 903503000395 RNA binding surface [nucleotide binding]; other site 903503000396 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 903503000397 probable active site [active] 903503000398 anthranilate synthase component I; Provisional; Region: PRK13564 903503000399 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 903503000400 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 903503000401 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 903503000402 Glutamine amidotransferase class-I; Region: GATase; pfam00117 903503000403 glutamine binding [chemical binding]; other site 903503000404 catalytic triad [active] 903503000405 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 903503000406 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 903503000407 active site 903503000408 ribulose/triose binding site [chemical binding]; other site 903503000409 phosphate binding site [ion binding]; other site 903503000410 substrate (anthranilate) binding pocket [chemical binding]; other site 903503000411 product (indole) binding pocket [chemical binding]; other site 903503000412 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 903503000413 active site 903503000414 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 903503000415 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 903503000416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 903503000417 catalytic residue [active] 903503000418 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 903503000419 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 903503000420 substrate binding site [chemical binding]; other site 903503000421 active site 903503000422 catalytic residues [active] 903503000423 heterodimer interface [polypeptide binding]; other site 903503000424 hypothetical protein; Provisional; Region: PRK02868 903503000425 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 903503000426 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 903503000427 active site 903503000428 dimer interface [polypeptide binding]; other site 903503000429 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 903503000430 dimer interface [polypeptide binding]; other site 903503000431 active site 903503000432 protease TldD; Provisional; Region: tldD; PRK10735 903503000433 putative peptidase; Provisional; Region: PRK11649 903503000434 Peptidase family M23; Region: Peptidase_M23; pfam01551 903503000435 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 903503000436 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 903503000437 metal binding site [ion binding]; metal-binding site 903503000438 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 903503000439 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 903503000440 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 903503000441 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 903503000442 ABC-ATPase subunit interface; other site 903503000443 dimer interface [polypeptide binding]; other site 903503000444 putative PBP binding regions; other site 903503000445 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 903503000446 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 903503000447 Walker A motif; other site 903503000448 ATP binding site [chemical binding]; other site 903503000449 Walker B motif; other site 903503000450 arginine finger; other site 903503000451 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 903503000452 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 903503000453 RuvA N terminal domain; Region: RuvA_N; pfam01330 903503000454 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 903503000455 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 903503000456 active site 903503000457 putative DNA-binding cleft [nucleotide binding]; other site 903503000458 dimer interface [polypeptide binding]; other site 903503000459 hypothetical protein; Validated; Region: PRK00110 903503000460 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 903503000461 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 903503000462 dimer interface [polypeptide binding]; other site 903503000463 anticodon binding site; other site 903503000464 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 903503000465 homodimer interface [polypeptide binding]; other site 903503000466 motif 1; other site 903503000467 active site 903503000468 motif 2; other site 903503000469 GAD domain; Region: GAD; pfam02938 903503000470 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 903503000471 active site 903503000472 motif 3; other site 903503000473 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 903503000474 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 903503000475 putative dimer interface [polypeptide binding]; other site 903503000476 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 903503000477 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 903503000478 putative dimer interface [polypeptide binding]; other site 903503000479 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 903503000480 Family description; Region: UvrD_C_2; pfam13538 903503000481 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 903503000482 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 903503000483 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 903503000484 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 903503000485 pyruvate kinase; Provisional; Region: PRK05826 903503000486 domain interfaces; other site 903503000487 active site 903503000488 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 903503000489 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 903503000490 Lipopolysaccharide-assembly; Region: LptE; cl01125 903503000491 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 903503000492 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 903503000493 HIGH motif; other site 903503000494 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 903503000495 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 903503000496 active site 903503000497 KMSKS motif; other site 903503000498 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 903503000499 tRNA binding surface [nucleotide binding]; other site 903503000500 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 903503000501 RNA/DNA hybrid binding site [nucleotide binding]; other site 903503000502 active site 903503000503 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 903503000504 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 903503000505 active site 903503000506 catalytic site [active] 903503000507 substrate binding site [chemical binding]; other site 903503000508 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 903503000509 ligand binding site [chemical binding]; other site 903503000510 active site 903503000511 UGI interface [polypeptide binding]; other site 903503000512 catalytic site [active] 903503000513 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 903503000514 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 903503000515 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 903503000516 lipoyl synthase; Provisional; Region: PRK05481 903503000517 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 903503000518 FeS/SAM binding site; other site 903503000519 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 903503000520 putative RNA binding site [nucleotide binding]; other site 903503000521 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 903503000522 homopentamer interface [polypeptide binding]; other site 903503000523 active site 903503000524 Peptidase family M23; Region: Peptidase_M23; pfam01551 903503000525 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 903503000526 MutS domain I; Region: MutS_I; pfam01624 903503000527 MutS domain II; Region: MutS_II; pfam05188 903503000528 MutS domain III; Region: MutS_III; pfam05192 903503000529 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 903503000530 Walker A/P-loop; other site 903503000531 ATP binding site [chemical binding]; other site 903503000532 Q-loop/lid; other site 903503000533 ABC transporter signature motif; other site 903503000534 Walker B; other site 903503000535 D-loop; other site 903503000536 H-loop/switch region; other site 903503000537 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 903503000538 active site 903503000539 DNA polymerase III subunit delta'; Validated; Region: PRK07993 903503000540 DNA polymerase III subunit delta'; Validated; Region: PRK08485 903503000541 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 903503000542 acyl carrier protein; Provisional; Region: acpP; PRK00982 903503000543 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 903503000544 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 903503000545 NAD(P) binding site [chemical binding]; other site 903503000546 homotetramer interface [polypeptide binding]; other site 903503000547 homodimer interface [polypeptide binding]; other site 903503000548 active site 903503000549 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 903503000550 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 903503000551 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 903503000552 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 903503000553 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 903503000554 RNA binding surface [nucleotide binding]; other site 903503000555 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 903503000556 active site 903503000557 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 903503000558 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 903503000559 homodimer interface [polypeptide binding]; other site 903503000560 oligonucleotide binding site [chemical binding]; other site 903503000561 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 903503000562 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 903503000563 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 903503000564 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 903503000565 active pocket/dimerization site; other site 903503000566 active site 903503000567 phosphorylation site [posttranslational modification] 903503000568 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 903503000569 active site 903503000570 phosphorylation site [posttranslational modification] 903503000571 hypothetical protein; Provisional; Region: PRK05114 903503000572 disulfide bond formation protein B; Provisional; Region: PRK01749 903503000573 septum formation inhibitor; Reviewed; Region: minC; PRK03511 903503000574 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 903503000575 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 903503000576 cell division inhibitor MinD; Provisional; Region: PRK10818 903503000577 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 903503000578 Switch I; other site 903503000579 Switch II; other site 903503000580 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 903503000581 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 903503000582 Glycoprotease family; Region: Peptidase_M22; pfam00814 903503000583 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 903503000584 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 903503000585 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 903503000586 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 903503000587 5S rRNA interface [nucleotide binding]; other site 903503000588 CTC domain interface [polypeptide binding]; other site 903503000589 L16 interface [polypeptide binding]; other site 903503000590 DNA recombination protein RmuC; Provisional; Region: PRK10361 903503000591 RmuC family; Region: RmuC; pfam02646 903503000592 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 903503000593 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 903503000594 nucleotide binding pocket [chemical binding]; other site 903503000595 K-X-D-G motif; other site 903503000596 catalytic site [active] 903503000597 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 903503000598 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 903503000599 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 903503000600 DNA binding site [nucleotide binding] 903503000601 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 903503000602 Dimer interface [polypeptide binding]; other site 903503000603 BRCT sequence motif; other site 903503000604 recombinase A; Provisional; Region: recA; PRK09354 903503000605 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 903503000606 hexamer interface [polypeptide binding]; other site 903503000607 Walker A motif; other site 903503000608 ATP binding site [chemical binding]; other site 903503000609 Walker B motif; other site 903503000610 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 903503000611 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 903503000612 motif 1; other site 903503000613 active site 903503000614 motif 2; other site 903503000615 motif 3; other site 903503000616 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 903503000617 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 903503000618 DHHA1 domain; Region: DHHA1; pfam02272 903503000619 carbon storage regulator; Provisional; Region: PRK01712 903503000620 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 903503000621 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 903503000622 putative dimer interface [polypeptide binding]; other site 903503000623 putative anticodon binding site; other site 903503000624 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 903503000625 homodimer interface [polypeptide binding]; other site 903503000626 motif 1; other site 903503000627 motif 2; other site 903503000628 active site 903503000629 motif 3; other site 903503000630 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 903503000631 homodimer interface [polypeptide binding]; other site 903503000632 substrate-cofactor binding pocket; other site 903503000633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 903503000634 catalytic residue [active] 903503000635 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 903503000636 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 903503000637 RNA binding site [nucleotide binding]; other site 903503000638 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 903503000639 RNA binding site [nucleotide binding]; other site 903503000640 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 903503000641 RNA binding site [nucleotide binding]; other site 903503000642 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 903503000643 RNA binding site [nucleotide binding]; other site 903503000644 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 903503000645 RNA binding site [nucleotide binding]; other site 903503000646 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 903503000647 RNA binding site [nucleotide binding]; other site 903503000648 peroxidase; Provisional; Region: PRK15000 903503000649 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 903503000650 dimer interface [polypeptide binding]; other site 903503000651 decamer (pentamer of dimers) interface [polypeptide binding]; other site 903503000652 catalytic triad [active] 903503000653 peroxidatic and resolving cysteines [active] 903503000654 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 903503000655 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 903503000656 serine endoprotease; Provisional; Region: PRK10139 903503000657 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 903503000658 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 903503000659 protein binding site [polypeptide binding]; other site 903503000660 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 903503000661 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 903503000662 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 903503000663 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 903503000664 dimer interface [polypeptide binding]; other site 903503000665 motif 1; other site 903503000666 active site 903503000667 motif 2; other site 903503000668 motif 3; other site 903503000669 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 903503000670 anticodon binding site; other site 903503000671 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 903503000672 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 903503000673 Trp docking motif [polypeptide binding]; other site 903503000674 active site 903503000675 GTP-binding protein Der; Reviewed; Region: PRK00093 903503000676 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 903503000677 G1 box; other site 903503000678 GTP/Mg2+ binding site [chemical binding]; other site 903503000679 Switch I region; other site 903503000680 G2 box; other site 903503000681 Switch II region; other site 903503000682 G3 box; other site 903503000683 G4 box; other site 903503000684 G5 box; other site 903503000685 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 903503000686 G1 box; other site 903503000687 GTP/Mg2+ binding site [chemical binding]; other site 903503000688 Switch I region; other site 903503000689 G2 box; other site 903503000690 G3 box; other site 903503000691 Switch II region; other site 903503000692 G4 box; other site 903503000693 G5 box; other site 903503000694 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 903503000695 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 903503000696 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 903503000697 generic binding surface II; other site 903503000698 ssDNA binding site; other site 903503000699 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 903503000700 ATP binding site [chemical binding]; other site 903503000701 putative Mg++ binding site [ion binding]; other site 903503000702 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 903503000703 nucleotide binding region [chemical binding]; other site 903503000704 ATP-binding site [chemical binding]; other site 903503000705 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 903503000706 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 903503000707 Walker A/P-loop; other site 903503000708 ATP binding site [chemical binding]; other site 903503000709 Q-loop/lid; other site 903503000710 ABC transporter signature motif; other site 903503000711 Walker B; other site 903503000712 D-loop; other site 903503000713 H-loop/switch region; other site 903503000714 OstA-like protein; Region: OstA; cl00844 903503000715 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 903503000716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 903503000717 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 903503000718 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 903503000719 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 903503000720 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 903503000721 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 903503000722 dimer interface [polypeptide binding]; other site 903503000723 TPP-binding site [chemical binding]; other site 903503000724 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 903503000725 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 903503000726 E3 interaction surface; other site 903503000727 lipoyl attachment site [posttranslational modification]; other site 903503000728 e3 binding domain; Region: E3_binding; pfam02817 903503000729 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 903503000730 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 903503000731 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 903503000732 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 903503000733 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 903503000734 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 903503000735 CPxP motif; other site 903503000736 siroheme synthase; Provisional; Region: cysG; PRK10637 903503000737 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 903503000738 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 903503000739 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 903503000740 active site 903503000741 SAM binding site [chemical binding]; other site 903503000742 homodimer interface [polypeptide binding]; other site 903503000743 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 903503000744 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 903503000745 Active Sites [active] 903503000746 sulfite reductase subunit beta; Provisional; Region: PRK13504 903503000747 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 903503000748 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 903503000749 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 903503000750 Flavodoxin; Region: Flavodoxin_1; pfam00258 903503000751 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 903503000752 FAD binding pocket [chemical binding]; other site 903503000753 FAD binding motif [chemical binding]; other site 903503000754 catalytic residues [active] 903503000755 NAD binding pocket [chemical binding]; other site 903503000756 phosphate binding motif [ion binding]; other site 903503000757 beta-alpha-beta structure motif; other site 903503000758 enolase; Provisional; Region: eno; PRK00077 903503000759 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 903503000760 dimer interface [polypeptide binding]; other site 903503000761 metal binding site [ion binding]; metal-binding site 903503000762 substrate binding pocket [chemical binding]; other site 903503000763 DNA polymerase I; Provisional; Region: PRK05755 903503000764 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 903503000765 active site 903503000766 metal binding site 1 [ion binding]; metal-binding site 903503000767 putative 5' ssDNA interaction site; other site 903503000768 metal binding site 3; metal-binding site 903503000769 metal binding site 2 [ion binding]; metal-binding site 903503000770 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 903503000771 putative DNA binding site [nucleotide binding]; other site 903503000772 putative metal binding site [ion binding]; other site 903503000773 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 903503000774 active site 903503000775 catalytic site [active] 903503000776 substrate binding site [chemical binding]; other site 903503000777 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 903503000778 active site 903503000779 DNA binding site [nucleotide binding] 903503000780 catalytic site [active] 903503000781 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 903503000782 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 903503000783 FMN binding site [chemical binding]; other site 903503000784 active site 903503000785 catalytic residues [active] 903503000786 substrate binding site [chemical binding]; other site 903503000787 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 903503000788 dimer interface [polypeptide binding]; other site 903503000789 motif 1; other site 903503000790 active site 903503000791 motif 2; other site 903503000792 motif 3; other site 903503000793 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 903503000794 DALR anticodon binding domain; Region: DALR_1; pfam05746 903503000795 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 903503000796 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 903503000797 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 903503000798 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 903503000799 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 903503000800 hypothetical protein; Provisional; Region: PRK11820 903503000801 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 903503000802 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 903503000803 MraW methylase family; Region: Methyltransf_5; pfam01795 903503000804 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 903503000805 Cell division protein FtsL; Region: FtsL; cl11433 903503000806 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 903503000807 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 903503000808 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 903503000809 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 903503000810 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 903503000811 Mg++ binding site [ion binding]; other site 903503000812 putative catalytic motif [active] 903503000813 putative substrate binding site [chemical binding]; other site 903503000814 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 903503000815 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 903503000816 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 903503000817 active site 903503000818 homodimer interface [polypeptide binding]; other site 903503000819 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 903503000820 Cell division protein FtsA; Region: FtsA; smart00842 903503000821 Cell division protein FtsA; Region: FtsA; pfam14450 903503000822 cell division protein FtsZ; Validated; Region: PRK09330 903503000823 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 903503000824 nucleotide binding site [chemical binding]; other site 903503000825 SulA interaction site; other site 903503000826 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 903503000827 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 903503000828 Protein of unknown function (DUF721); Region: DUF721; cl02324 903503000829 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 903503000830 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 903503000831 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 903503000832 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 903503000833 dimer interface [polypeptide binding]; other site 903503000834 PYR/PP interface [polypeptide binding]; other site 903503000835 TPP binding site [chemical binding]; other site 903503000836 substrate binding site [chemical binding]; other site 903503000837 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 903503000838 Domain of unknown function; Region: EKR; smart00890 903503000839 4Fe-4S binding domain; Region: Fer4_6; pfam12837 903503000840 4Fe-4S binding domain; Region: Fer4; pfam00037 903503000841 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 903503000842 TPP-binding site [chemical binding]; other site 903503000843 dimer interface [polypeptide binding]; other site 903503000844 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 903503000845 Phosphoglycerate kinase; Region: PGK; pfam00162 903503000846 substrate binding site [chemical binding]; other site 903503000847 hinge regions; other site 903503000848 ADP binding site [chemical binding]; other site 903503000849 catalytic site [active] 903503000850 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 903503000851 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 903503000852 active site 903503000853 intersubunit interface [polypeptide binding]; other site 903503000854 zinc binding site [ion binding]; other site 903503000855 Na+ binding site [ion binding]; other site 903503000856 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 903503000857 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 903503000858 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 903503000859 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 903503000860 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 903503000861 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 903503000862 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 903503000863 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 903503000864 DNA binding residues [nucleotide binding] 903503000865 DNA primase; Validated; Region: dnaG; PRK05667 903503000866 CHC2 zinc finger; Region: zf-CHC2; pfam01807 903503000867 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 903503000868 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 903503000869 active site 903503000870 metal binding site [ion binding]; metal-binding site 903503000871 interdomain interaction site; other site 903503000872 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 903503000873 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 903503000874 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 903503000875 UGMP family protein; Validated; Region: PRK09604 903503000876 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 903503000877 translation elongation factor P; Region: efp; TIGR00038 903503000878 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 903503000879 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 903503000880 RNA binding site [nucleotide binding]; other site 903503000881 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 903503000882 RNA binding site [nucleotide binding]; other site 903503000883 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 903503000884 Dehydroquinase class II; Region: DHquinase_II; pfam01220 903503000885 active site 903503000886 trimer interface [polypeptide binding]; other site 903503000887 dimer interface [polypeptide binding]; other site 903503000888 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 903503000889 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 903503000890 carboxyltransferase (CT) interaction site; other site 903503000891 biotinylation site [posttranslational modification]; other site 903503000892 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 903503000893 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 903503000894 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 903503000895 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 903503000896 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 903503000897 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 903503000898 putative tRNA-binding site [nucleotide binding]; other site 903503000899 B3/4 domain; Region: B3_4; pfam03483 903503000900 tRNA synthetase B5 domain; Region: B5; smart00874 903503000901 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 903503000902 dimer interface [polypeptide binding]; other site 903503000903 motif 1; other site 903503000904 motif 3; other site 903503000905 motif 2; other site 903503000906 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 903503000907 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 903503000908 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 903503000909 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 903503000910 dimer interface [polypeptide binding]; other site 903503000911 motif 1; other site 903503000912 active site 903503000913 motif 2; other site 903503000914 motif 3; other site 903503000915 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 903503000916 23S rRNA binding site [nucleotide binding]; other site 903503000917 L21 binding site [polypeptide binding]; other site 903503000918 L13 binding site [polypeptide binding]; other site 903503000919 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 903503000920 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 903503000921 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 903503000922 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 903503000923 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 903503000924 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 903503000925 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 903503000926 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 903503000927 active site 903503000928 dimer interface [polypeptide binding]; other site 903503000929 motif 1; other site 903503000930 motif 2; other site 903503000931 motif 3; other site 903503000932 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 903503000933 anticodon binding site; other site 903503000934 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 903503000935 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 903503000936 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 903503000937 shikimate binding site; other site 903503000938 NAD(P) binding site [chemical binding]; other site 903503000939 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 903503000940 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 903503000941 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 903503000942 hypothetical protein; Provisional; Region: PRK11027 903503000943 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 903503000944 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 903503000945 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 903503000946 DNA binding residues [nucleotide binding] 903503000947 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 903503000948 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 903503000949 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 903503000950 P loop; other site 903503000951 GTP binding site [chemical binding]; other site 903503000952 GTP-binding protein YchF; Reviewed; Region: PRK09601 903503000953 YchF GTPase; Region: YchF; cd01900 903503000954 G1 box; other site 903503000955 GTP/Mg2+ binding site [chemical binding]; other site 903503000956 Switch I region; other site 903503000957 G2 box; other site 903503000958 Switch II region; other site 903503000959 G3 box; other site 903503000960 G4 box; other site 903503000961 G5 box; other site 903503000962 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 903503000963 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 903503000964 putative active site [active] 903503000965 catalytic residue [active] 903503000966 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 903503000967 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 903503000968 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 903503000969 active site 903503000970 peptide chain release factor 1; Validated; Region: prfA; PRK00591 903503000971 This domain is found in peptide chain release factors; Region: PCRF; smart00937 903503000972 RF-1 domain; Region: RF-1; pfam00472 903503000973 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 903503000974 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 903503000975 S-adenosylmethionine binding site [chemical binding]; other site 903503000976 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 903503000977 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 903503000978 active site 903503000979 dimerization interface [polypeptide binding]; other site 903503000980 cysteine desulfurase; Provisional; Region: PRK14012 903503000981 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 903503000982 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 903503000983 catalytic residue [active] 903503000984 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 903503000985 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 903503000986 active site 903503000987 hydrophilic channel; other site 903503000988 dimerization interface [polypeptide binding]; other site 903503000989 catalytic residues [active] 903503000990 active site lid [active] 903503000991 protein disaggregation chaperone; Provisional; Region: PRK10865 903503000992 Clp amino terminal domain; Region: Clp_N; pfam02861 903503000993 Clp amino terminal domain; Region: Clp_N; pfam02861 903503000994 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 903503000995 Walker A motif; other site 903503000996 ATP binding site [chemical binding]; other site 903503000997 Walker B motif; other site 903503000998 arginine finger; other site 903503000999 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 903503001000 Walker A motif; other site 903503001001 ATP binding site [chemical binding]; other site 903503001002 Walker B motif; other site 903503001003 arginine finger; other site 903503001004 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 903503001005 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 903503001006 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 903503001007 RNA binding surface [nucleotide binding]; other site 903503001008 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 903503001009 active site 903503001010 peptidase PmbA; Provisional; Region: PRK11040 903503001011 Putative exonuclease, RdgC; Region: RdgC; pfam04381 903503001012 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 903503001013 putative global regulator; Reviewed; Region: PRK09559 903503001014 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 903503001015 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 903503001016 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 903503001017 putative active site [active] 903503001018 Ap4A binding site [chemical binding]; other site 903503001019 nudix motif; other site 903503001020 putative metal binding site [ion binding]; other site 903503001021 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 903503001022 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 903503001023 penicillin-binding protein 2; Provisional; Region: PRK10795 903503001024 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 903503001025 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 903503001026 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 903503001027 HemK family putative methylases; Region: hemK_fam; TIGR00536 903503001028 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 903503001029 S-adenosylmethionine binding site [chemical binding]; other site 903503001030 Stringent starvation protein B; Region: SspB; cl01120 903503001031 serine acetyltransferase; Provisional; Region: cysE; PRK11132 903503001032 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 903503001033 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 903503001034 trimer interface [polypeptide binding]; other site 903503001035 active site 903503001036 substrate binding site [chemical binding]; other site 903503001037 CoA binding site [chemical binding]; other site 903503001038 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 903503001039 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 903503001040 active site 903503001041 phosphorylation site [posttranslational modification] 903503001042 intermolecular recognition site; other site 903503001043 dimerization interface [polypeptide binding]; other site 903503001044 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 903503001045 DNA binding site [nucleotide binding] 903503001046 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 903503001047 triosephosphate isomerase; Provisional; Region: PRK14567 903503001048 substrate binding site [chemical binding]; other site 903503001049 dimer interface [polypeptide binding]; other site 903503001050 catalytic triad [active] 903503001051 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 903503001052 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 903503001053 active site 903503001054 ADP/pyrophosphate binding site [chemical binding]; other site 903503001055 dimerization interface [polypeptide binding]; other site 903503001056 allosteric effector site; other site 903503001057 fructose-1,6-bisphosphate binding site; other site 903503001058 transketolase; Reviewed; Region: PRK12753 903503001059 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 903503001060 TPP-binding site [chemical binding]; other site 903503001061 dimer interface [polypeptide binding]; other site 903503001062 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 903503001063 PYR/PP interface [polypeptide binding]; other site 903503001064 dimer interface [polypeptide binding]; other site 903503001065 TPP binding site [chemical binding]; other site 903503001066 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 903503001067 outer membrane lipoprotein; Provisional; Region: PRK11023 903503001068 BON domain; Region: BON; pfam04972 903503001069 BON domain; Region: BON; cl02771 903503001070 metal-binding heat shock protein; Provisional; Region: PRK00016 903503001071 prolyl-tRNA synthetase; Provisional; Region: PRK09194 903503001072 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 903503001073 dimer interface [polypeptide binding]; other site 903503001074 motif 1; other site 903503001075 active site 903503001076 motif 2; other site 903503001077 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 903503001078 putative deacylase active site [active] 903503001079 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 903503001080 active site 903503001081 motif 3; other site 903503001082 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 903503001083 anticodon binding site; other site 903503001084 argininosuccinate lyase; Provisional; Region: PRK04833 903503001085 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 903503001086 active sites [active] 903503001087 tetramer interface [polypeptide binding]; other site 903503001088 superoxide dismutase; Provisional; Region: PRK10925 903503001089 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 903503001090 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 903503001091 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 903503001092 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 903503001093 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 903503001094 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 903503001095 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 903503001096 active site 903503001097 HIGH motif; other site 903503001098 KMSK motif region; other site 903503001099 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 903503001100 tRNA binding surface [nucleotide binding]; other site 903503001101 anticodon binding site; other site 903503001102 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 903503001103 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 903503001104 active site 903503001105 interdomain interaction site; other site 903503001106 putative metal-binding site [ion binding]; other site 903503001107 nucleotide binding site [chemical binding]; other site 903503001108 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 903503001109 domain I; other site 903503001110 DNA binding groove [nucleotide binding] 903503001111 phosphate binding site [ion binding]; other site 903503001112 domain II; other site 903503001113 domain III; other site 903503001114 nucleotide binding site [chemical binding]; other site 903503001115 catalytic site [active] 903503001116 domain IV; other site 903503001117 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 903503001118 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 903503001119 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 903503001120 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 903503001121 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 903503001122 nucleoside/Zn binding site; other site 903503001123 dimer interface [polypeptide binding]; other site 903503001124 catalytic motif [active] 903503001125 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 903503001126 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 903503001127 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 903503001128 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 903503001129 GTP1/OBG; Region: GTP1_OBG; pfam01018 903503001130 Obg GTPase; Region: Obg; cd01898 903503001131 G1 box; other site 903503001132 GTP/Mg2+ binding site [chemical binding]; other site 903503001133 Switch I region; other site 903503001134 G2 box; other site 903503001135 G3 box; other site 903503001136 Switch II region; other site 903503001137 G4 box; other site 903503001138 G5 box; other site 903503001139 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 903503001140 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 903503001141 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 903503001142 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 903503001143 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 903503001144 S-adenosylmethionine binding site [chemical binding]; other site 903503001145 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 903503001146 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 903503001147 Walker A motif; other site 903503001148 ATP binding site [chemical binding]; other site 903503001149 Walker B motif; other site 903503001150 arginine finger; other site 903503001151 Peptidase family M41; Region: Peptidase_M41; pfam01434 903503001152 Preprotein translocase SecG subunit; Region: SecG; pfam03840 903503001153 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 903503001154 NusA N-terminal domain; Region: NusA_N; pfam08529 903503001155 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 903503001156 RNA binding site [nucleotide binding]; other site 903503001157 homodimer interface [polypeptide binding]; other site 903503001158 NusA-like KH domain; Region: KH_5; pfam13184 903503001159 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 903503001160 G-X-X-G motif; other site 903503001161 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 903503001162 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 903503001163 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 903503001164 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 903503001165 translation initiation factor IF-2; Region: IF-2; TIGR00487 903503001166 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 903503001167 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 903503001168 G1 box; other site 903503001169 putative GEF interaction site [polypeptide binding]; other site 903503001170 GTP/Mg2+ binding site [chemical binding]; other site 903503001171 Switch I region; other site 903503001172 G2 box; other site 903503001173 G3 box; other site 903503001174 Switch II region; other site 903503001175 G4 box; other site 903503001176 G5 box; other site 903503001177 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 903503001178 Translation-initiation factor 2; Region: IF-2; pfam11987 903503001179 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 903503001180 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 903503001181 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 903503001182 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 903503001183 RNA binding site [nucleotide binding]; other site 903503001184 active site 903503001185 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 903503001186 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 903503001187 16S/18S rRNA binding site [nucleotide binding]; other site 903503001188 S13e-L30e interaction site [polypeptide binding]; other site 903503001189 25S rRNA binding site [nucleotide binding]; other site 903503001190 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 903503001191 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 903503001192 RNase E interface [polypeptide binding]; other site 903503001193 trimer interface [polypeptide binding]; other site 903503001194 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 903503001195 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 903503001196 RNase E interface [polypeptide binding]; other site 903503001197 trimer interface [polypeptide binding]; other site 903503001198 active site 903503001199 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 903503001200 putative nucleic acid binding region [nucleotide binding]; other site 903503001201 G-X-X-G motif; other site 903503001202 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 903503001203 RNA binding site [nucleotide binding]; other site 903503001204 domain interface; other site 903503001205 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 903503001206 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 903503001207 ATP binding site [chemical binding]; other site 903503001208 Mg++ binding site [ion binding]; other site 903503001209 motif III; other site 903503001210 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 903503001211 nucleotide binding region [chemical binding]; other site 903503001212 ATP-binding site [chemical binding]; other site 903503001213 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 903503001214 putative RNA binding site [nucleotide binding]; other site 903503001215 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 903503001216 dimerization domain swap beta strand [polypeptide binding]; other site 903503001217 regulatory protein interface [polypeptide binding]; other site 903503001218 active site 903503001219 regulatory phosphorylation site [posttranslational modification]; other site 903503001220 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 903503001221 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 903503001222 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 903503001223 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 903503001224 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 903503001225 23S rRNA interface [nucleotide binding]; other site 903503001226 L3 interface [polypeptide binding]; other site 903503001227 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 903503001228 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 903503001229 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 903503001230 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 903503001231 putative active site [active] 903503001232 catalytic site [active] 903503001233 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 903503001234 putative active site [active] 903503001235 catalytic site [active] 903503001236 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 903503001237 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 903503001238 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 903503001239 RimM N-terminal domain; Region: RimM; pfam01782 903503001240 PRC-barrel domain; Region: PRC; pfam05239 903503001241 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 903503001242 signal recognition particle protein; Provisional; Region: PRK10867 903503001243 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 903503001244 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 903503001245 P loop; other site 903503001246 GTP binding site [chemical binding]; other site 903503001247 Signal peptide binding domain; Region: SRP_SPB; pfam02978 903503001248 murein transglycosylase C; Provisional; Region: mltC; PRK11671 903503001249 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 903503001250 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 903503001251 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 903503001252 N-acetyl-D-glucosamine binding site [chemical binding]; other site 903503001253 catalytic residue [active] 903503001254 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 903503001255 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 903503001256 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 903503001257 S-adenosylmethionine binding site [chemical binding]; other site 903503001258 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 903503001259 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 903503001260 dimer interface [polypeptide binding]; other site 903503001261 active site 903503001262 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 903503001263 active site 903503001264 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 903503001265 rRNA interaction site [nucleotide binding]; other site 903503001266 S8 interaction site; other site 903503001267 putative laminin-1 binding site; other site 903503001268 elongation factor Ts; Provisional; Region: tsf; PRK09377 903503001269 UBA/TS-N domain; Region: UBA; pfam00627 903503001270 Elongation factor TS; Region: EF_TS; pfam00889 903503001271 Elongation factor TS; Region: EF_TS; pfam00889 903503001272 ribosome recycling factor; Reviewed; Region: frr; PRK00083 903503001273 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 903503001274 hinge region; other site 903503001275 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 903503001276 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 903503001277 catalytic residue [active] 903503001278 putative FPP diphosphate binding site; other site 903503001279 putative FPP binding hydrophobic cleft; other site 903503001280 dimer interface [polypeptide binding]; other site 903503001281 putative IPP diphosphate binding site; other site 903503001282 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 903503001283 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 903503001284 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 903503001285 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 903503001286 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 903503001287 Surface antigen; Region: Bac_surface_Ag; pfam01103 903503001288 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 903503001289 periplasmic chaperone; Provisional; Region: PRK10780 903503001290 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 903503001291 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 903503001292 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 903503001293 trimer interface [polypeptide binding]; other site 903503001294 active site 903503001295 UDP-GlcNAc binding site [chemical binding]; other site 903503001296 lipid binding site [chemical binding]; lipid-binding site 903503001297 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 903503001298 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 903503001299 active site 903503001300 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 903503001301 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 903503001302 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 903503001303 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 903503001304 putative active site [active] 903503001305 putative PHP Thumb interface [polypeptide binding]; other site 903503001306 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 903503001307 generic binding surface II; other site 903503001308 generic binding surface I; other site 903503001309 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 903503001310 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 903503001311 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 903503001312 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 903503001313 active site 903503001314 HIGH motif; other site 903503001315 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 903503001316 active site 903503001317 KMSKS motif; other site 903503001318 heat shock protein HtpX; Provisional; Region: PRK05457 903503001319 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 903503001320 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 903503001321 oligomer interface [polypeptide binding]; other site 903503001322 active site residues [active] 903503001323 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 903503001324 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 903503001325 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 903503001326 Walker A motif; other site 903503001327 ATP binding site [chemical binding]; other site 903503001328 Walker B motif; other site 903503001329 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 903503001330 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 903503001331 Found in ATP-dependent protease La (LON); Region: LON; smart00464 903503001332 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 903503001333 Walker A motif; other site 903503001334 ATP binding site [chemical binding]; other site 903503001335 Walker B motif; other site 903503001336 arginine finger; other site 903503001337 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 903503001338 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 903503001339 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 903503001340 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 903503001341 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 903503001342 putative active site [active] 903503001343 substrate binding site [chemical binding]; other site 903503001344 putative cosubstrate binding site; other site 903503001345 catalytic site [active] 903503001346 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 903503001347 substrate binding site [chemical binding]; other site 903503001348 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 903503001349 active site 903503001350 catalytic residues [active] 903503001351 metal binding site [ion binding]; metal-binding site 903503001352 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 903503001353 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 903503001354 active site 903503001355 HIGH motif; other site 903503001356 KMSKS motif; other site 903503001357 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 903503001358 anticodon binding site; other site 903503001359 tRNA binding surface [nucleotide binding]; other site 903503001360 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 903503001361 active site 903503001362 nucleotide binding site [chemical binding]; other site 903503001363 HIGH motif; other site 903503001364 KMSKS motif; other site 903503001365 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 903503001366 oligomerization interface [polypeptide binding]; other site 903503001367 active site 903503001368 metal binding site [ion binding]; metal-binding site 903503001369 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 903503001370 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 903503001371 active site 903503001372 NTP binding site [chemical binding]; other site 903503001373 metal binding triad [ion binding]; metal-binding site 903503001374 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 903503001375 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 903503001376 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 903503001377 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 903503001378 DHH family; Region: DHH; pfam01368 903503001379 DHHA1 domain; Region: DHHA1; pfam02272 903503001380 peptide chain release factor 2; Validated; Region: prfB; PRK00578 903503001381 This domain is found in peptide chain release factors; Region: PCRF; smart00937 903503001382 RF-1 domain; Region: RF-1; pfam00472 903503001383 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 903503001384 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 903503001385 dimer interface [polypeptide binding]; other site 903503001386 putative anticodon binding site; other site 903503001387 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 903503001388 motif 1; other site 903503001389 active site 903503001390 motif 2; other site 903503001391 motif 3; other site 903503001392 shikimate kinase; Reviewed; Region: aroK; PRK00131 903503001393 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 903503001394 ADP binding site [chemical binding]; other site 903503001395 magnesium binding site [ion binding]; other site 903503001396 putative shikimate binding site; other site 903503001397 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 903503001398 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 903503001399 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 903503001400 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 903503001401 phosphate acetyltransferase; Reviewed; Region: PRK05632 903503001402 DRTGG domain; Region: DRTGG; pfam07085 903503001403 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 903503001404 propionate/acetate kinase; Provisional; Region: PRK12379 903503001405 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 903503001406 inner membrane protein; Provisional; Region: PRK11648 903503001407 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 903503001408 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 903503001409 G1 box; other site 903503001410 putative GEF interaction site [polypeptide binding]; other site 903503001411 GTP/Mg2+ binding site [chemical binding]; other site 903503001412 Switch I region; other site 903503001413 G2 box; other site 903503001414 G3 box; other site 903503001415 Switch II region; other site 903503001416 G4 box; other site 903503001417 G5 box; other site 903503001418 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 903503001419 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 903503001420 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 903503001421 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 903503001422 dimerization interface 3.5A [polypeptide binding]; other site 903503001423 active site 903503001424 Biotin operon repressor [Transcription]; Region: BirA; COG1654 903503001425 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 903503001426 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 903503001427 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 903503001428 YGGT family; Region: YGGT; pfam02325 903503001429 YGGT family; Region: YGGT; pfam02325 903503001430 HemN family oxidoreductase; Provisional; Region: PRK05660 903503001431 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 903503001432 FeS/SAM binding site; other site 903503001433 HemN C-terminal domain; Region: HemN_C; pfam06969 903503001434 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 903503001435 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 903503001436 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 903503001437 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 903503001438 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 903503001439 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 903503001440 putative ABC transporter; Region: ycf24; CHL00085 903503001441 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 903503001442 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 903503001443 Walker A/P-loop; other site 903503001444 ATP binding site [chemical binding]; other site 903503001445 Q-loop/lid; other site 903503001446 ABC transporter signature motif; other site 903503001447 Walker B; other site 903503001448 D-loop; other site 903503001449 H-loop/switch region; other site 903503001450 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 903503001451 FeS assembly protein SufD; Region: sufD; TIGR01981 903503001452 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 903503001453 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 903503001454 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 903503001455 catalytic residue [active] 903503001456 Fe-S metabolism associated domain; Region: SufE; cl00951 903503001457 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 903503001458 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 903503001459 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 903503001460 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 903503001461 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 903503001462 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 903503001463 Walker A/P-loop; other site 903503001464 ATP binding site [chemical binding]; other site 903503001465 Q-loop/lid; other site 903503001466 ABC transporter signature motif; other site 903503001467 Walker B; other site 903503001468 D-loop; other site 903503001469 H-loop/switch region; other site 903503001470 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 903503001471 active site 1 [active] 903503001472 dimer interface [polypeptide binding]; other site 903503001473 active site 2 [active] 903503001474 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 903503001475 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 903503001476 flavodoxin FldA; Validated; Region: PRK09267 903503001477 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 903503001478 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 903503001479 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 903503001480 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 903503001481 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 903503001482 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 903503001483 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 903503001484 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 903503001485 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 903503001486 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 903503001487 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 903503001488 protein-rRNA interface [nucleotide binding]; other site 903503001489 putative translocon binding site; other site 903503001490 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 903503001491 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 903503001492 G-X-X-G motif; other site 903503001493 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 903503001494 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 903503001495 23S rRNA interface [nucleotide binding]; other site 903503001496 5S rRNA interface [nucleotide binding]; other site 903503001497 putative antibiotic binding site [chemical binding]; other site 903503001498 L25 interface [polypeptide binding]; other site 903503001499 L27 interface [polypeptide binding]; other site 903503001500 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 903503001501 23S rRNA interface [nucleotide binding]; other site 903503001502 putative translocon interaction site; other site 903503001503 signal recognition particle (SRP54) interaction site; other site 903503001504 L23 interface [polypeptide binding]; other site 903503001505 trigger factor interaction site; other site 903503001506 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 903503001507 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 903503001508 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 903503001509 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 903503001510 RNA binding site [nucleotide binding]; other site 903503001511 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 903503001512 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 903503001513 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 903503001514 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 903503001515 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 903503001516 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 903503001517 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 903503001518 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 903503001519 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 903503001520 23S rRNA interface [nucleotide binding]; other site 903503001521 5S rRNA interface [nucleotide binding]; other site 903503001522 L27 interface [polypeptide binding]; other site 903503001523 L5 interface [polypeptide binding]; other site 903503001524 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 903503001525 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 903503001526 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 903503001527 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 903503001528 23S rRNA binding site [nucleotide binding]; other site 903503001529 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 903503001530 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 903503001531 SecY translocase; Region: SecY; pfam00344 903503001532 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 903503001533 30S ribosomal protein S13; Region: bact_S13; TIGR03631 903503001534 30S ribosomal protein S11; Validated; Region: PRK05309 903503001535 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 903503001536 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 903503001537 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 903503001538 RNA binding surface [nucleotide binding]; other site 903503001539 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 903503001540 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 903503001541 alphaNTD homodimer interface [polypeptide binding]; other site 903503001542 alphaNTD - beta interaction site [polypeptide binding]; other site 903503001543 alphaNTD - beta' interaction site [polypeptide binding]; other site 903503001544 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 903503001545 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 903503001546 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 903503001547 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 903503001548 ring oligomerisation interface [polypeptide binding]; other site 903503001549 ATP/Mg binding site [chemical binding]; other site 903503001550 stacking interactions; other site 903503001551 hinge regions; other site 903503001552 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 903503001553 oligomerisation interface [polypeptide binding]; other site 903503001554 mobile loop; other site 903503001555 roof hairpin; other site 903503001556 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 903503001557 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 903503001558 dimer interface [polypeptide binding]; other site 903503001559 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 903503001560 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 903503001561 SmpB-tmRNA interface; other site 903503001562 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 903503001563 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 903503001564 active site 903503001565 HIGH motif; other site 903503001566 nucleotide binding site [chemical binding]; other site 903503001567 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 903503001568 KMSKS motif; other site 903503001569 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 903503001570 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 903503001571 catalytic site [active] 903503001572 putative active site [active] 903503001573 putative substrate binding site [chemical binding]; other site 903503001574 dimer interface [polypeptide binding]; other site 903503001575 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 903503001576 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 903503001577 putative catalytic site [active] 903503001578 putative phosphate binding site [ion binding]; other site 903503001579 active site 903503001580 metal binding site A [ion binding]; metal-binding site 903503001581 DNA binding site [nucleotide binding] 903503001582 putative AP binding site [nucleotide binding]; other site 903503001583 putative metal binding site B [ion binding]; other site 903503001584 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 903503001585 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 903503001586 active site 903503001587 HIGH motif; other site 903503001588 dimer interface [polypeptide binding]; other site 903503001589 KMSKS motif; other site 903503001590 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 903503001591 RNA binding surface [nucleotide binding]; other site 903503001592 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 903503001593 thiamine phosphate binding site [chemical binding]; other site 903503001594 active site 903503001595 pyrophosphate binding site [ion binding]; other site 903503001596 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 903503001597 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 903503001598 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 903503001599 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 903503001600 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 903503001601 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 903503001602 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 903503001603 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 903503001604 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 903503001605 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 903503001606 DNA binding site [nucleotide binding] 903503001607 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 903503001608 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 903503001609 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 903503001610 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 903503001611 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 903503001612 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 903503001613 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 903503001614 RPB3 interaction site [polypeptide binding]; other site 903503001615 RPB1 interaction site [polypeptide binding]; other site 903503001616 RPB11 interaction site [polypeptide binding]; other site 903503001617 RPB10 interaction site [polypeptide binding]; other site 903503001618 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 903503001619 core dimer interface [polypeptide binding]; other site 903503001620 peripheral dimer interface [polypeptide binding]; other site 903503001621 L10 interface [polypeptide binding]; other site 903503001622 L11 interface [polypeptide binding]; other site 903503001623 putative EF-Tu interaction site [polypeptide binding]; other site 903503001624 putative EF-G interaction site [polypeptide binding]; other site 903503001625 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 903503001626 23S rRNA interface [nucleotide binding]; other site 903503001627 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 903503001628 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 903503001629 mRNA/rRNA interface [nucleotide binding]; other site 903503001630 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 903503001631 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 903503001632 23S rRNA interface [nucleotide binding]; other site 903503001633 L7/L12 interface [polypeptide binding]; other site 903503001634 putative thiostrepton binding site; other site 903503001635 L25 interface [polypeptide binding]; other site 903503001636 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 903503001637 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 903503001638 putative homodimer interface [polypeptide binding]; other site 903503001639 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 903503001640 heterodimer interface [polypeptide binding]; other site 903503001641 homodimer interface [polypeptide binding]; other site 903503001642 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 903503001643 elongation factor Tu; Reviewed; Region: PRK00049 903503001644 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 903503001645 G1 box; other site 903503001646 GEF interaction site [polypeptide binding]; other site 903503001647 GTP/Mg2+ binding site [chemical binding]; other site 903503001648 Switch I region; other site 903503001649 G2 box; other site 903503001650 G3 box; other site 903503001651 Switch II region; other site 903503001652 G4 box; other site 903503001653 G5 box; other site 903503001654 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 903503001655 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 903503001656 Antibiotic Binding Site [chemical binding]; other site 903503001657 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 903503001658 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 903503001659 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 903503001660 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 903503001661 DNA polymerase III subunit chi; Validated; Region: PRK05728 903503001662 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 903503001663 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 903503001664 active site 903503001665 HIGH motif; other site 903503001666 nucleotide binding site [chemical binding]; other site 903503001667 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 903503001668 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 903503001669 active site 903503001670 KMSKS motif; other site 903503001671 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 903503001672 tRNA binding surface [nucleotide binding]; other site 903503001673 anticodon binding site; other site 903503001674 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 903503001675 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 903503001676 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 903503001677 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 903503001678 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 903503001679 dimer interface [polypeptide binding]; other site 903503001680 putative radical transfer pathway; other site 903503001681 diiron center [ion binding]; other site 903503001682 tyrosyl radical; other site 903503001683 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 903503001684 ATP cone domain; Region: ATP-cone; pfam03477 903503001685 Class I ribonucleotide reductase; Region: RNR_I; cd01679 903503001686 active site 903503001687 dimer interface [polypeptide binding]; other site 903503001688 catalytic residues [active] 903503001689 effector binding site; other site 903503001690 R2 peptide binding site; other site 903503001691 DNA gyrase subunit A; Validated; Region: PRK05560 903503001692 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 903503001693 CAP-like domain; other site 903503001694 active site 903503001695 primary dimer interface [polypeptide binding]; other site 903503001696 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 903503001697 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 903503001698 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 903503001699 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 903503001700 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 903503001701 thioredoxin reductase; Provisional; Region: PRK10262 903503001702 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 903503001703 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 903503001704 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 903503001705 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 903503001706 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 903503001707 Walker A/P-loop; other site 903503001708 ATP binding site [chemical binding]; other site 903503001709 Q-loop/lid; other site 903503001710 ABC transporter signature motif; other site 903503001711 Walker B; other site 903503001712 D-loop; other site 903503001713 H-loop/switch region; other site 903503001714 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 903503001715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 903503001716 Walker A/P-loop; other site 903503001717 ATP binding site [chemical binding]; other site 903503001718 Q-loop/lid; other site 903503001719 ABC transporter signature motif; other site 903503001720 Walker B; other site 903503001721 D-loop; other site 903503001722 H-loop/switch region; other site 903503001723 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 903503001724 rRNA binding site [nucleotide binding]; other site 903503001725 predicted 30S ribosome binding site; other site 903503001726 elongation factor G; Reviewed; Region: PRK00007 903503001727 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 903503001728 G1 box; other site 903503001729 putative GEF interaction site [polypeptide binding]; other site 903503001730 GTP/Mg2+ binding site [chemical binding]; other site 903503001731 Switch I region; other site 903503001732 G2 box; other site 903503001733 G3 box; other site 903503001734 Switch II region; other site 903503001735 G4 box; other site 903503001736 G5 box; other site 903503001737 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 903503001738 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 903503001739 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 903503001740 30S ribosomal protein S7; Validated; Region: PRK05302 903503001741 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 903503001742 S17 interaction site [polypeptide binding]; other site 903503001743 S8 interaction site; other site 903503001744 16S rRNA interaction site [nucleotide binding]; other site 903503001745 streptomycin interaction site [chemical binding]; other site 903503001746 23S rRNA interaction site [nucleotide binding]; other site 903503001747 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 903503001748 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 903503001749 sulfur relay protein TusC; Validated; Region: PRK00211 903503001750 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 903503001751 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 903503001752 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 903503001753 Ligand Binding Site [chemical binding]; other site 903503001754 TilS substrate binding domain; Region: TilS; pfam09179 903503001755 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 903503001756 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 903503001757 Transglycosylase; Region: Transgly; pfam00912 903503001758 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760