-- dump date 20120504_141616 -- class Genbank::misc_feature -- table misc_feature_note -- id note 138677000001 Domain of unknown function (DUF378); Region: DUF378; cl00943 138677000002 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 138677000003 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 138677000004 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 138677000005 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 138677000006 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 138677000007 GatB domain; Region: GatB_Yqey; cl11497 138677000008 adhesin; Provisional; Region: PRK09752 138677000009 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677000010 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677000011 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677000012 LysE type translocator; Region: LysE; cl00565 138677000013 IncA protein; Region: IncA; pfam04156 138677000014 Domain of unknown function (DUF1978); Region: DUF1978; pfam09321 138677000015 IncA protein; Region: IncA; pfam04156 138677000016 Domain of unknown function (DUF1978); Region: DUF1978; pfam09321 138677000017 Violaxanthin de-epoxidase (VDE); Region: VDE; cl06253 138677000018 IncA protein; Region: IncA; pfam04156 138677000019 Domain of unknown function (DUF1978); Region: DUF1978; pfam09321 138677000020 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 138677000021 IncA protein; Region: IncA; pfam04156 138677000022 Domain of unknown function (DUF1978); Region: DUF1978; pfam09321 138677000023 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677000024 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677000025 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 138677000026 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 138677000027 adhesin; Provisional; Region: PRK09752 138677000028 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677000029 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677000030 adhesin; Provisional; Region: PRK09752 138677000031 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677000032 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677000033 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677000034 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677000035 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677000036 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 138677000037 Maf-like protein; Region: Maf; pfam02545 138677000038 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 138677000039 active site 138677000040 dimer interface [polypeptide binding]; other site 138677000041 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 138677000042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000043 Walker A/P-loop; other site 138677000044 ATP binding site [chemical binding]; other site 138677000045 Q-loop/lid; other site 138677000046 ABC transporter signature motif; other site 138677000047 Walker B; other site 138677000048 D-loop; other site 138677000049 H-loop/switch region; other site 138677000050 ABC transporter; Region: ABC_tran_2; pfam12848 138677000051 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 138677000052 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 138677000053 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 138677000054 Int/Topo IB signature motif; other site 138677000055 active site 138677000056 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 138677000057 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 138677000058 Found in ATP-dependent protease La (LON); Region: LON; smart00464 138677000059 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 138677000060 Walker A motif; other site 138677000061 ATP binding site [chemical binding]; other site 138677000062 Walker B motif; other site 138677000063 arginine finger; other site 138677000064 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 138677000065 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 138677000066 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 138677000067 chaperone protein DnaJ; Provisional; Region: PRK14284 138677000068 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 138677000069 HSP70 interaction site [polypeptide binding]; other site 138677000070 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 138677000071 Zn binding sites [ion binding]; other site 138677000072 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 138677000073 dimer interface [polypeptide binding]; other site 138677000074 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 138677000075 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 138677000076 tetramer interface [polypeptide binding]; other site 138677000077 TPP-binding site [chemical binding]; other site 138677000078 heterodimer interface [polypeptide binding]; other site 138677000079 phosphorylation loop region [posttranslational modification] 138677000080 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 138677000081 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 138677000082 alpha subunit interface [polypeptide binding]; other site 138677000083 TPP binding site [chemical binding]; other site 138677000084 heterodimer interface [polypeptide binding]; other site 138677000085 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 138677000086 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 138677000087 Competence protein; Region: Competence; cl00471 138677000088 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 138677000089 dimerization domain swap beta strand [polypeptide binding]; other site 138677000090 regulatory protein interface [polypeptide binding]; other site 138677000091 active site 138677000092 regulatory phosphorylation site [posttranslational modification]; other site 138677000093 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 138677000094 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 138677000095 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 138677000096 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; cl09155 138677000097 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 138677000098 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06305 138677000099 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 138677000100 Walker A motif; other site 138677000101 ATP binding site [chemical binding]; other site 138677000102 Walker B motif; other site 138677000103 arginine finger; other site 138677000104 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 138677000105 IncA protein; Region: IncA; pfam04156 138677000106 Domain of unknown function (DUF1978); Region: DUF1978; pfam09321 138677000107 transferase, transferring glycosyl groups; Region: PLN02939 138677000108 Domain of unknown function (DUF1978); Region: DUF1978; pfam09321 138677000109 IncA protein; Region: IncA; pfam04156 138677000110 Domain of unknown function (DUF1978); Region: DUF1978; pfam09321 138677000111 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 138677000112 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 138677000113 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138677000114 Zn2+ binding site [ion binding]; other site 138677000115 Mg2+ binding site [ion binding]; other site 138677000116 porphobilinogen deaminase; Provisional; Region: PRK01066 138677000117 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; cl03189 138677000118 domain interfaces; other site 138677000119 active site 138677000120 DNA repair protein RadA; Provisional; Region: PRK11823 138677000121 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 138677000122 Walker A motif/ATP binding site; other site 138677000123 ATP binding site [chemical binding]; other site 138677000124 Walker B motif; other site 138677000125 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 138677000126 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 138677000127 dimerization interface [polypeptide binding]; other site 138677000128 active site 138677000129 metal binding site [ion binding]; metal-binding site 138677000130 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 138677000131 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 138677000132 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 138677000133 active site 138677000134 substrate binding site [chemical binding]; other site 138677000135 metal binding site [ion binding]; metal-binding site 138677000136 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 138677000137 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 138677000138 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 138677000139 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 138677000140 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 138677000141 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 138677000142 trimer interface [polypeptide binding]; other site 138677000143 active site 138677000144 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 138677000145 active site 138677000146 phosphorylation site [posttranslational modification] 138677000147 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 138677000148 DNA binding residues [nucleotide binding] 138677000149 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 138677000150 active site 138677000151 phosphorylation site [posttranslational modification] 138677000152 IncA protein; Region: IncA; pfam04156 138677000153 Protein of unknown function (DUF687); Region: DUF687; pfam05095 138677000154 Uncharacterized conserved protein [Function unknown]; Region: HdeD; cl01277 138677000155 Protein of unknown function (DUF687); Region: DUF687; pfam05095 138677000156 Fe-S metabolism associated domain; Region: SufE; cl00951 138677000157 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 138677000158 rRNA binding site [nucleotide binding]; other site 138677000159 predicted 30S ribosome binding site; other site 138677000160 elongation factor Tu; Reviewed; Region: PRK12735 138677000161 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 138677000162 G1 box; other site 138677000163 GEF interaction site [polypeptide binding]; other site 138677000164 GTP/Mg2+ binding site [chemical binding]; other site 138677000165 Switch I region; other site 138677000166 G2 box; other site 138677000167 G3 box; other site 138677000168 Switch II region; other site 138677000169 G4 box; other site 138677000170 G5 box; other site 138677000171 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 138677000172 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 138677000173 Antibiotic Binding Site [chemical binding]; other site 138677000174 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 138677000175 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 138677000176 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 138677000177 putative homodimer interface [polypeptide binding]; other site 138677000178 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 138677000179 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 138677000180 putative thiostrepton binding site; other site 138677000181 23S rRNA interface [nucleotide binding]; other site 138677000182 L7/L12 interface [polypeptide binding]; other site 138677000183 L25 interface [polypeptide binding]; other site 138677000184 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 138677000185 mRNA/rRNA interface [nucleotide binding]; other site 138677000186 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 138677000187 23S rRNA interface [nucleotide binding]; other site 138677000188 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 138677000189 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 138677000190 L11 interface [polypeptide binding]; other site 138677000191 putative EF-Tu interaction site [polypeptide binding]; other site 138677000192 putative EF-G interaction site [polypeptide binding]; other site 138677000193 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; cl04593 138677000194 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 138677000195 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 138677000196 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; cl04593 138677000197 RPB11 interaction site [polypeptide binding]; other site 138677000198 RPB12 interaction site [polypeptide binding]; other site 138677000199 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 138677000200 RPB3 interaction site [polypeptide binding]; other site 138677000201 RPB1 interaction site [polypeptide binding]; other site 138677000202 RPB11 interaction site [polypeptide binding]; other site 138677000203 RPB10 interaction site [polypeptide binding]; other site 138677000204 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 138677000205 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 138677000206 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 138677000207 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 138677000208 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 138677000209 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 138677000210 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 138677000211 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 138677000212 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 138677000213 DNA binding site [nucleotide binding] 138677000214 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 138677000215 transaldolase-like protein; Provisional; Region: PTZ00411 138677000216 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 138677000217 active site 138677000218 dimer interface [polypeptide binding]; other site 138677000219 catalytic residue [active] 138677000220 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 138677000221 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 138677000222 V-type ATP synthase subunit A; Provisional; Region: PRK04192 138677000223 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 138677000224 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 138677000225 Walker A motif/ATP binding site; other site 138677000226 Walker B motif; other site 138677000227 V-type ATP synthase subunit B; Provisional; Region: PRK02118 138677000228 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 138677000229 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 138677000230 Walker A motif homologous position; other site 138677000231 Walker B motif; other site 138677000232 ATP synthase subunit D; Region: ATP-synt_D; cl00613 138677000233 V-type ATP synthase subunit I; Validated; Region: PRK05771 138677000234 V-type ATP synthase subunit K; Provisional; Region: PRK09621 138677000235 ATP synthase subunit C; Region: ATP-synt_C; cl00466 138677000236 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 138677000237 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 138677000238 HIGH motif; other site 138677000239 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 138677000240 active site 138677000241 KMSKS motif; other site 138677000242 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 138677000243 tRNA binding surface [nucleotide binding]; other site 138677000244 anticodon binding site; other site 138677000245 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 138677000246 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 138677000247 Catalytic domain of Protein Kinases; Region: PKc; cd00180 138677000248 active site 138677000249 ATP binding site [chemical binding]; other site 138677000250 substrate binding site [chemical binding]; other site 138677000251 activation loop (A-loop); other site 138677000252 excinuclease ABC subunit A; Provisional; Region: PRK00635 138677000253 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000254 Walker A/P-loop; other site 138677000255 ATP binding site [chemical binding]; other site 138677000256 Q-loop/lid; other site 138677000257 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000258 ABC transporter signature motif; other site 138677000259 Walker B; other site 138677000260 D-loop; other site 138677000261 H-loop/switch region; other site 138677000262 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 138677000263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000264 Walker A/P-loop; other site 138677000265 ATP binding site [chemical binding]; other site 138677000266 Q-loop/lid; other site 138677000267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000268 Walker A/P-loop; other site 138677000269 ATP binding site [chemical binding]; other site 138677000270 Q-loop/lid; other site 138677000271 ABC transporter signature motif; other site 138677000272 Walker B; other site 138677000273 D-loop; other site 138677000274 H-loop/switch region; other site 138677000275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000276 Walker A/P-loop; other site 138677000277 ATP binding site [chemical binding]; other site 138677000278 Q-loop/lid; other site 138677000279 ABC transporter signature motif; other site 138677000280 Walker B; other site 138677000281 D-loop; other site 138677000282 H-loop/switch region; other site 138677000283 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; cl09155 138677000284 pyruvate kinase; Region: pyruv_kin; TIGR01064 138677000285 domain interfaces; other site 138677000286 active site 138677000287 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 138677000288 putative acyl-acceptor binding pocket; other site 138677000289 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 138677000290 Uncharacterized conserved protein [Function unknown]; Region: COG1624 138677000291 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 138677000292 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 138677000293 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 138677000294 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 138677000295 Bacterial SH3 domain; Region: SH3_3; cl02551 138677000296 Bacterial SH3 domain; Region: SH3_3; cl02551 138677000297 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 138677000298 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 138677000299 putative active site [active] 138677000300 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000301 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cd02749 138677000302 ADP-ribose binding site [chemical binding]; other site 138677000303 Interferon alpha, beta. Includes also interferon omega and tau. Different from interferon gamma family. Type I interferons(alpha, beta) belong to the larger helical cytokine superfamily, which includes growth hormones, interleukins, several...; Region: IFab; cl00092 138677000304 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 138677000305 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 138677000306 HIGH motif; other site 138677000307 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 138677000308 active site 138677000309 KMSKS motif; other site 138677000310 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 138677000311 tRNA binding surface [nucleotide binding]; other site 138677000312 anticodon binding site; other site 138677000313 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 138677000314 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 138677000315 Catalytic site [active] 138677000316 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 138677000317 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 138677000318 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 138677000319 peptide chain release factor 1; Validated; Region: prfA; PRK00591 138677000320 RF-1 domain; Region: RF-1; cl02875 138677000321 RF-1 domain; Region: RF-1; cl02875 138677000322 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 138677000323 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; cl12011 138677000324 signal recognition particle protein; Provisional; Region: PRK10867 138677000325 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 138677000326 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 138677000327 P loop; other site 138677000328 GTP binding site [chemical binding]; other site 138677000329 Signal peptide binding domain; Region: SRP_SPB; pfam02978 138677000330 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 138677000331 tRNA (guanine-N(1)-)-methyltransferase/unknown domain fusion protein; Reviewed; Region: trmD; PRK01037 138677000332 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 138677000333 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 138677000334 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 138677000335 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 138677000336 RNA/DNA hybrid binding site [nucleotide binding]; other site 138677000337 active site 138677000338 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 138677000339 catalytic site [active] 138677000340 G-X2-G-X-G-K; other site 138677000341 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 138677000342 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 138677000343 active site 138677000344 HIGH motif; other site 138677000345 KMSKS motif; other site 138677000346 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 138677000347 tRNA binding surface [nucleotide binding]; other site 138677000348 anticodon binding site; other site 138677000349 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 138677000350 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 138677000351 Walker A motif; other site 138677000352 ATP binding site [chemical binding]; other site 138677000353 Walker B motif; other site 138677000354 IncA protein; Region: IncA; pfam04156 138677000355 Domain of unknown function (DUF1978); Region: DUF1978; pfam09321 138677000356 Domain of unknown function (DUF1978); Region: DUF1978; pfam09321 138677000357 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 138677000358 Uncharacterized conserved protein [Function unknown]; Region: COG4285 138677000359 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 138677000360 conserved cys residue [active] 138677000361 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 138677000362 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 138677000363 ring oligomerisation interface [polypeptide binding]; other site 138677000364 ATP/Mg binding site [chemical binding]; other site 138677000365 stacking interactions; other site 138677000366 hinge regions; other site 138677000367 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 138677000368 oligomerisation interface [polypeptide binding]; other site 138677000369 mobile loop; other site 138677000370 roof hairpin; other site 138677000371 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 138677000372 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 138677000373 active site 138677000374 Zn binding site [ion binding]; other site 138677000375 Uncharacterized conserved protein [Function unknown]; Region: COG0327 138677000376 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 138677000377 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00615 138677000378 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 138677000379 inhibitor-cofactor binding pocket; inhibition site 138677000380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138677000381 catalytic residue [active] 138677000382 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 138677000383 Uncharacterised ACR, COG1259; Region: DUF151; cl00553 138677000384 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 138677000385 tetramer (dimer of dimers) interface [polypeptide binding]; other site 138677000386 active site 138677000387 dimer interface [polypeptide binding]; other site 138677000388 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 138677000389 substrate binding site [chemical binding]; other site 138677000390 THF binding site; other site 138677000391 zinc-binding site [ion binding]; other site 138677000392 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 138677000393 Clp amino terminal domain; Region: Clp_N; pfam02861 138677000394 Clp amino terminal domain; Region: Clp_N; pfam02861 138677000395 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 138677000396 Walker A motif; other site 138677000397 ATP binding site [chemical binding]; other site 138677000398 Walker B motif; other site 138677000399 arginine finger; other site 138677000400 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 138677000401 Walker A motif; other site 138677000402 ATP binding site [chemical binding]; other site 138677000403 Walker B motif; other site 138677000404 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 138677000405 Uncharacterized conserved protein [Function unknown]; Region: COG2912 138677000406 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 138677000407 TPR motif; other site 138677000408 binding surface 138677000409 Catalytic domain of Protein Kinases; Region: PKc; cd00180 138677000410 active site 138677000411 ATP binding site [chemical binding]; other site 138677000412 substrate binding site [chemical binding]; other site 138677000413 activation loop (A-loop); other site 138677000414 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 138677000415 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 138677000416 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 138677000417 nucleotide binding pocket [chemical binding]; other site 138677000418 K-X-D-G motif; other site 138677000419 catalytic site [active] 138677000420 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 138677000421 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 138677000422 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 138677000423 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 138677000424 Dimer interface [polypeptide binding]; other site 138677000425 BRCT sequence motif; other site 138677000426 chromosome segregation protein; Provisional; Region: PRK03918 138677000427 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 138677000428 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 138677000429 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 138677000430 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 138677000431 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 138677000432 HIGH motif; other site 138677000433 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 138677000434 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 138677000435 active site 138677000436 KMSKS motif; other site 138677000437 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 138677000438 tRNA binding surface [nucleotide binding]; other site 138677000439 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 138677000440 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 138677000441 Family of unknown function (DUF648); Region: DUF648; pfam04890 138677000442 Family of unknown function (DUF648); Region: DUF648; pfam04890 138677000443 Family of unknown function (DUF648); Region: DUF648; pfam04890 138677000444 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 138677000445 active site 138677000446 ADP/pyrophosphate binding site [chemical binding]; other site 138677000447 dimerization interface [polypeptide binding]; other site 138677000448 allosteric effector site; other site 138677000449 fructose-1,6-bisphosphate binding site; other site 138677000450 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 138677000451 Family of unknown function (DUF648); Region: DUF648; pfam04890 138677000452 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 138677000453 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 138677000454 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 138677000455 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 138677000456 AMP/PPi binding site [chemical binding]; other site 138677000457 candidate oxyanion hole; other site 138677000458 catalytic triad [active] 138677000459 potential glutamine specificity residues [chemical binding]; other site 138677000460 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 138677000461 ATP Binding subdomain [chemical binding]; other site 138677000462 Dimerization subdomain; other site 138677000463 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 138677000464 active site 138677000465 MAC/Perforin domain; Region: MACPF; cl02616 138677000466 translocon at the inner envelope of chloroplast subunit 62; Provisional; Region: PLN03209 138677000467 Domain in ryanodine and inositol trisphosphate receptors and protein O-mannosyltransferases; Region: MIR; smart00472 138677000468 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 138677000469 putative active site pocket [active] 138677000470 dimerization interface [polypeptide binding]; other site 138677000471 putative catalytic residue [active] 138677000472 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 138677000473 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 138677000474 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 138677000475 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 138677000476 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 138677000477 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 138677000478 carboxyltransferase (CT) interaction site; other site 138677000479 biotinylation site [posttranslational modification]; other site 138677000480 elongation factor P; Provisional; Region: PRK12426 138677000481 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 138677000482 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 138677000483 RNA binding site [nucleotide binding]; other site 138677000484 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 138677000485 RNA binding site [nucleotide binding]; other site 138677000486 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 138677000487 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 138677000488 substrate binding site [chemical binding]; other site 138677000489 hexamer interface [polypeptide binding]; other site 138677000490 metal binding site [ion binding]; metal-binding site 138677000491 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 138677000492 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 138677000493 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 138677000494 S-adenosylmethionine binding site [chemical binding]; other site 138677000495 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 138677000496 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 138677000497 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 138677000498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000499 Walker A/P-loop; other site 138677000500 ATP binding site [chemical binding]; other site 138677000501 Q-loop/lid; other site 138677000502 ABC transporter signature motif; other site 138677000503 Walker B; other site 138677000504 D-loop; other site 138677000505 H-loop/switch region; other site 138677000506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 138677000507 dimer interface [polypeptide binding]; other site 138677000508 conserved gate region; other site 138677000509 putative PBP binding loops; other site 138677000510 ABC-ATPase subunit interface; other site 138677000511 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 138677000512 arginine repressor; Region: argR_whole; TIGR01529 138677000513 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 138677000514 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 138677000515 putative glycoprotease GCP; Region: bact_gcp; TIGR03723 138677000516 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 138677000517 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 138677000518 peptide binding site [polypeptide binding]; other site 138677000519 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 138677000520 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 138677000521 peptide binding site [polypeptide binding]; other site 138677000522 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 138677000523 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 138677000524 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 138677000525 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 138677000526 peptide binding site [polypeptide binding]; other site 138677000527 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138677000528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 138677000529 dimer interface [polypeptide binding]; other site 138677000530 conserved gate region; other site 138677000531 putative PBP binding loops; other site 138677000532 ABC-ATPase subunit interface; other site 138677000533 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 138677000534 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 138677000535 putative PBP binding loops; other site 138677000536 dimer interface [polypeptide binding]; other site 138677000537 ABC-ATPase subunit interface; other site 138677000538 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 138677000539 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 138677000540 Walker A/P-loop; other site 138677000541 ATP binding site [chemical binding]; other site 138677000542 Q-loop/lid; other site 138677000543 ABC transporter signature motif; other site 138677000544 Walker B; other site 138677000545 D-loop; other site 138677000546 H-loop/switch region; other site 138677000547 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 138677000548 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 138677000549 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 138677000550 Walker A/P-loop; other site 138677000551 ATP binding site [chemical binding]; other site 138677000552 Q-loop/lid; other site 138677000553 ABC transporter signature motif; other site 138677000554 Walker B; other site 138677000555 D-loop; other site 138677000556 H-loop/switch region; other site 138677000557 Family of unknown function (DUF648); Region: DUF648; pfam04890 138677000558 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 138677000559 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 138677000560 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138677000561 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 138677000562 transmembrane helices; other site 138677000563 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 138677000564 active site 138677000565 ADP/pyrophosphate binding site [chemical binding]; other site 138677000566 dimerization interface [polypeptide binding]; other site 138677000567 allosteric effector site; other site 138677000568 fructose-1,6-bisphosphate binding site; other site 138677000569 Family of unknown function (DUF648); Region: DUF648; pfam04890 138677000570 IncA protein; Region: IncA; pfam04156 138677000571 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 138677000572 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 138677000573 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 138677000574 putative replication initiation protein; Region: PHA00330 138677000575 IncA protein; Region: IncA; pfam04156 138677000576 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 138677000577 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 138677000578 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 138677000579 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000580 Walker A/P-loop; other site 138677000581 ATP binding site [chemical binding]; other site 138677000582 Q-loop/lid; other site 138677000583 ABC transporter signature motif; other site 138677000584 Walker B; other site 138677000585 D-loop; other site 138677000586 H-loop/switch region; other site 138677000587 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 138677000588 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 138677000589 Ligand binding site; other site 138677000590 oligomer interface; other site 138677000591 CTP synthetase; Validated; Region: pyrG; PRK05380 138677000592 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 138677000593 Catalytic site [active] 138677000594 active site 138677000595 UTP binding site [chemical binding]; other site 138677000596 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 138677000597 active site 138677000598 putative oxyanion hole; other site 138677000599 catalytic triad [active] 138677000600 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 includes...; Region: RuvC_resolvase; cl00243 138677000601 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 138677000602 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 138677000603 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 138677000604 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 138677000605 putative active site [active] 138677000606 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 138677000607 adenylate kinases; Region: adk; TIGR01351 138677000608 AMP-binding site [chemical binding]; other site 138677000609 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 138677000610 NlpC/P60 family; Region: NLPC_P60; cl11438 138677000611 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 138677000612 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 138677000613 23S rRNA interface [nucleotide binding]; other site 138677000614 L3 interface [polypeptide binding]; other site 138677000615 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138677000616 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 138677000617 Walker A/P-loop; other site 138677000618 ATP binding site [chemical binding]; other site 138677000619 Q-loop/lid; other site 138677000620 ABC transporter signature motif; other site 138677000621 Walker B; other site 138677000622 D-loop; other site 138677000623 H-loop/switch region; other site 138677000624 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138677000625 FtsX-like permease family; Region: FtsX; pfam02687 138677000626 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 138677000627 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 138677000628 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 138677000629 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 138677000630 SEC-C motif; Region: SEC-C; pfam02810 138677000631 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 138677000632 Ligand Binding Site [chemical binding]; other site 138677000633 Survival protein SurE; Region: SurE; cl00448 138677000634 Uncharacterized conserved protein [Function unknown]; Region: COG1284 138677000635 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 138677000636 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 138677000637 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 138677000638 aromatic acid decarboxylase; Validated; Region: PRK05920 138677000639 Flavoprotein; Region: Flavoprotein; cl08021 138677000640 UbiA prenyltransferase family; Region: UbiA; cl00337 138677000641 IncA protein; Region: IncA; pfam04156 138677000642 IncA protein; Region: IncA; pfam04156 138677000643 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 138677000644 active site 138677000645 dimer interface [polypeptide binding]; other site 138677000646 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 138677000647 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 138677000648 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 138677000649 DNA polymerase III subunit delta'; Validated; Region: PRK05917 138677000650 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000651 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 138677000652 thymidylate kinase; Validated; Region: tmk; PRK00698 138677000653 TMP-binding site; other site 138677000654 ATP-binding site [chemical binding]; other site 138677000655 DNA gyrase, A subunit; Region: gyrA; TIGR01063 138677000656 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 in DNA...; Region: TOP4c; cd00187 138677000657 CAP-like domain; other site 138677000658 active site 138677000659 primary dimer interface [polypeptide binding]; other site 138677000660 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138677000661 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138677000662 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138677000663 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138677000664 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138677000665 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138677000666 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 138677000667 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 138677000668 ATP binding site [chemical binding]; other site 138677000669 Mg2+ binding site [ion binding]; other site 138677000670 G-X-G motif; other site 138677000671 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 138677000672 anchoring element; other site 138677000673 dimer interface [polypeptide binding]; other site 138677000674 ATP binding site [chemical binding]; other site 138677000675 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 138677000676 active site 138677000677 putative metal-binding site [ion binding]; other site 138677000678 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 138677000679 Protein of unknown function (DUF721); Region: DUF721; cl02324 138677000680 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 138677000681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 138677000682 dimer interface [polypeptide binding]; other site 138677000683 conserved gate region; other site 138677000684 putative PBP binding loops; other site 138677000685 ABC-ATPase subunit interface; other site 138677000686 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 138677000687 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 138677000688 Walker A/P-loop; other site 138677000689 ATP binding site [chemical binding]; other site 138677000690 Q-loop/lid; other site 138677000691 ABC transporter signature motif; other site 138677000692 Walker B; other site 138677000693 D-loop; other site 138677000694 H-loop/switch region; other site 138677000695 NIL domain; Region: NIL; cl09633 138677000696 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 138677000697 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 138677000698 putative active site; other site 138677000699 catalytic residue [active] 138677000700 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 138677000701 Amino acid permease; Region: AA_permease; cl00524 138677000702 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 138677000703 MgtE intracellular N domain; Region: MgtE_N; cl15244 138677000704 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 138677000705 Divalent cation transporter; Region: MgtE; cl00786 138677000706 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 138677000707 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 138677000708 TLC ATP/ADP transporter; Region: TLC; cl03940 138677000709 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 138677000710 ligand binding site [chemical binding]; other site 138677000711 flexible hinge region; other site 138677000712 Phosphopantetheine attachment site; Region: PP-binding; cl09936 138677000713 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 138677000714 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 138677000715 NAD(P) binding site [chemical binding]; other site 138677000716 homotetramer interface [polypeptide binding]; other site 138677000717 homodimer interface [polypeptide binding]; other site 138677000718 active site 138677000719 Acyl transferase domain; Region: Acyl_transf_1; cl08282 138677000720 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 138677000721 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 138677000722 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 138677000723 dimer interface [polypeptide binding]; other site 138677000724 active site 138677000725 CoA binding pocket [chemical binding]; other site 138677000726 recombination protein RecR; Reviewed; Region: recR; PRK00076 138677000727 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 138677000728 putative active site [active] 138677000729 putative metal-binding site [ion binding]; other site 138677000730 tetramer interface [polypeptide binding]; other site 138677000731 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 138677000732 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 138677000733 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 138677000734 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 138677000735 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 138677000736 Surface antigen; Region: Bac_surface_Ag; cl03097 138677000737 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 138677000738 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 138677000739 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 138677000740 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 138677000741 trimer interface [polypeptide binding]; other site 138677000742 active site 138677000743 UDP-GlcNAc binding site [chemical binding]; other site 138677000744 lipid binding site [chemical binding]; lipid-binding site 138677000745 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 138677000746 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 138677000747 tetramer interface [polypeptide binding]; other site 138677000748 TPP-binding site [chemical binding]; other site 138677000749 heterodimer interface [polypeptide binding]; other site 138677000750 phosphorylation loop region [posttranslational modification] 138677000751 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 138677000752 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 138677000753 alpha subunit interface [polypeptide binding]; other site 138677000754 TPP binding site [chemical binding]; other site 138677000755 heterodimer interface [polypeptide binding]; other site 138677000756 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 138677000757 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 138677000758 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 138677000759 E3 interaction surface; other site 138677000760 lipoyl attachment site [posttranslational modification]; other site 138677000761 e3 binding domain; Region: E3_binding; pfam02817 138677000762 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 138677000763 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 138677000764 homodimer interface [polypeptide binding]; other site 138677000765 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 138677000766 active site pocket [active] 138677000767 chromosomal replication initiation protein; Provisional; Region: PRK12422 138677000768 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 138677000769 Walker A motif; other site 138677000770 ATP binding site [chemical binding]; other site 138677000771 Walker B motif; other site 138677000772 arginine finger; other site 138677000773 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 138677000774 DnaA box-binding interface [nucleotide binding]; other site 138677000775 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01001 138677000776 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 138677000777 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 138677000778 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 138677000779 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 138677000780 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138677000781 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 138677000782 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 138677000783 RNA binding site [nucleotide binding]; other site 138677000784 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 138677000785 RNA binding site [nucleotide binding]; other site 138677000786 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 138677000787 RNA binding site [nucleotide binding]; other site 138677000788 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 138677000789 RNA binding site [nucleotide binding]; other site 138677000790 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 138677000791 RNA binding site [nucleotide binding]; other site 138677000792 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 138677000793 RNA binding site [nucleotide binding]; other site 138677000794 transcription termination factor NusA; Region: NusA; TIGR01953 138677000795 NusA N-terminal domain; Region: NusA_N; pfam08529 138677000796 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 138677000797 RNA binding site [nucleotide binding]; other site 138677000798 homodimer interface [polypeptide binding]; other site 138677000799 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 138677000800 G-X-X-G motif; other site 138677000801 DNA repair protein RAD51 homolog; Provisional; Region: PLN03186 138677000802 translation initiation factor IF-2; Validated; Region: infB; PRK05306 138677000803 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 138677000804 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 138677000805 G1 box; other site 138677000806 putative GEF interaction site [polypeptide binding]; other site 138677000807 GTP/Mg2+ binding site [chemical binding]; other site 138677000808 Switch I region; other site 138677000809 G2 box; other site 138677000810 G3 box; other site 138677000811 Switch II region; other site 138677000812 G4 box; other site 138677000813 G5 box; other site 138677000814 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 138677000815 Translation-initiation factor 2; Region: IF-2; pfam11987 138677000816 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 138677000817 Ribosome-binding factor A; Region: RBFA; cl00542 138677000818 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 138677000819 RNA binding site [nucleotide binding]; other site 138677000820 active site 138677000821 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 138677000822 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 138677000823 active site 138677000824 Riboflavin kinase; Region: Flavokinase; cl03312 138677000825 GTP-binding protein YchF; Reviewed; Region: PRK09601 138677000826 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 138677000827 G1 box; other site 138677000828 GTP/Mg2+ binding site [chemical binding]; other site 138677000829 Switch I region; other site 138677000830 G2 box; other site 138677000831 Switch II region; other site 138677000832 G3 box; other site 138677000833 G4 box; other site 138677000834 G5 box; other site 138677000835 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 138677000836 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 138677000837 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 138677000838 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 138677000839 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 138677000840 HrpJ-like domain; Region: HrpJ; cl15454 138677000841 Tir chaperone protein (CesT); Region: CesT; cl08444 138677000842 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 138677000843 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 138677000844 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 138677000845 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 138677000846 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 138677000847 putative active site [active] 138677000848 catalytic site [active] 138677000849 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 138677000850 putative active site [active] 138677000851 catalytic site [active] 138677000852 molecular chaperone DnaK; Provisional; Region: PRK13410 138677000853 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14181 138677000854 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 138677000855 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 138677000856 homodimer interface [polypeptide binding]; other site 138677000857 NADP binding site [chemical binding]; other site 138677000858 substrate binding site [chemical binding]; other site 138677000859 ApbE family; Region: ApbE; cl00643 138677000860 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 138677000861 SmpB-tmRNA interface; other site 138677000862 DNA polymerase III subunit beta; Validated; Region: PRK05643 138677000863 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 138677000864 putative DNA binding surface [nucleotide binding]; other site 138677000865 dimer interface [polypeptide binding]; other site 138677000866 beta-clamp/clamp loader binding surface; other site 138677000867 beta-clamp/translesion DNA polymerase binding surface; other site 138677000868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000869 ATP binding site [chemical binding]; other site 138677000870 Walker A/P-loop; other site 138677000871 Q-loop/lid; other site 138677000872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677000873 ABC transporter signature motif; other site 138677000874 Walker B; other site 138677000875 D-loop; other site 138677000876 H-loop/switch region; other site 138677000877 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 138677000878 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 138677000879 RIP metalloprotease RseP; Region: TIGR00054 138677000880 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 138677000881 active site 138677000882 RIP metalloprotease RseP; Region: TIGR00054 138677000883 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 138677000884 putative substrate binding region [chemical binding]; other site 138677000885 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 138677000886 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 138677000887 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 138677000888 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 138677000889 ABC-ATPase subunit interface; other site 138677000890 dimer interface [polypeptide binding]; other site 138677000891 putative PBP binding regions; other site 138677000892 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 138677000893 ABC-ATPase subunit interface; other site 138677000894 dimer interface [polypeptide binding]; other site 138677000895 putative PBP binding regions; other site 138677000896 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 138677000897 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 138677000898 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 138677000899 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 138677000900 Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins...; Region: TroA; cd01016 138677000901 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 138677000902 metal binding site [ion binding]; metal-binding site 138677000903 intersubunit interface [polypeptide binding]; other site 138677000904 TLC ATP/ADP transporter; Region: TLC; pfam03219 138677000905 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 138677000906 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 138677000907 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 138677000908 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 138677000909 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 138677000910 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 138677000911 GTP-binding protein LepA; Provisional; Region: PRK05433 138677000912 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 138677000913 G1 box; other site 138677000914 putative GEF interaction site [polypeptide binding]; other site 138677000915 GTP/Mg2+ binding site [chemical binding]; other site 138677000916 Switch I region; other site 138677000917 G2 box; other site 138677000918 G3 box; other site 138677000919 Switch II region; other site 138677000920 G4 box; other site 138677000921 G5 box; other site 138677000922 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 138677000923 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 138677000924 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 138677000925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677000926 6-phosphogluconate dehydrogenase (decarboxylating); Region: gnd; TIGR00873 138677000927 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 138677000928 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 138677000929 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 138677000930 active site 138677000931 HIGH motif; other site 138677000932 dimer interface [polypeptide binding]; other site 138677000933 KMSKS motif; other site 138677000934 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; cl09940 138677000935 RNA polymerase sigma factor sigma-28; Reviewed; Region: PRK05911 138677000936 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138677000937 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 138677000938 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 138677000939 DNA binding residues [nucleotide binding] 138677000940 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 138677000941 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 138677000942 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 138677000943 catalytic loop [active] 138677000944 iron binding site [ion binding]; other site 138677000945 Carbohydrate-binding protein of the ER; Region: Malectin_like; pfam12819 138677000946 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 138677000947 ADP-ribose binding site [chemical binding]; other site 138677000948 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 138677000949 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cd02749 138677000950 ADP-ribose binding site [chemical binding]; other site 138677000951 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cd02749 138677000952 ADP-ribose binding site [chemical binding]; other site 138677000953 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 138677000954 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 138677000955 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 138677000956 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 138677000957 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 138677000958 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 138677000959 E3 interaction surface; other site 138677000960 lipoyl attachment site [posttranslational modification]; other site 138677000961 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 138677000962 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 138677000963 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 138677000964 TPP-binding site [chemical binding]; other site 138677000965 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 138677000966 dimer interface [polypeptide binding]; other site 138677000967 PYR/PP interface [polypeptide binding]; other site 138677000968 TPP binding site [chemical binding]; other site 138677000969 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 138677000970 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 138677000971 FeS/SAM binding site; other site 138677000972 HemN C-terminal region; Region: HemN_C; pfam06969 138677000973 Protein of unknown function (DUF687); Region: DUF687; pfam05095 138677000974 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 138677000975 hypothetical protein; Provisional; Region: PRK05907 138677000976 multifunctional aminopeptidase A; Provisional; Region: PRK00913 138677000977 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 138677000978 interface (dimer of trimers) [polypeptide binding]; other site 138677000979 Substrate-binding/catalytic site; other site 138677000980 Zn-binding sites [ion binding]; other site 138677000981 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 138677000982 dimer interface [polypeptide binding]; other site 138677000983 ssDNA binding site [nucleotide binding]; other site 138677000984 tetramer (dimer of dimers) interface [polypeptide binding]; other site 138677000985 Tir chaperone protein (CesT); Region: CesT; cl08444 138677000986 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 138677000987 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 138677000988 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 138677000989 active site 138677000990 catalytic site [active] 138677000991 Stage II sporulation protein; Region: SpoIID; pfam08486 138677000992 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 138677000993 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 138677000994 Walker A motif; other site 138677000995 ATP binding site [chemical binding]; other site 138677000996 Walker B motif; other site 138677000997 arginine finger; other site 138677000998 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 138677000999 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 138677001000 trimer interface [polypeptide binding]; other site 138677001001 active site 138677001002 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 138677001003 Domain of unknown function DUF21; Region: DUF21; pfam01595 138677001004 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 138677001005 Transporter associated domain; Region: CorC_HlyC; cl08393 138677001006 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 138677001007 Domain of unknown function DUF21; Region: DUF21; pfam01595 138677001008 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 138677001009 Transporter associated domain; Region: CorC_HlyC; cl08393 138677001010 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 138677001011 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 138677001012 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138677001013 catalytic residue [active] 138677001014 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 138677001015 Protein phosphatase 2C; Region: PP2C; pfam00481 138677001016 active site 138677001017 CAAX protease self-immunity; Region: Abi; cl00558 138677001018 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 138677001019 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 138677001020 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 138677001021 minor groove reading motif; other site 138677001022 helix-hairpin-helix signature motif; other site 138677001023 substrate binding pocket [chemical binding]; other site 138677001024 active site 138677001025 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 138677001026 DNA binding and oxoG recognition site [nucleotide binding] 138677001027 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 138677001028 RNA binding surface [nucleotide binding]; other site 138677001029 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 138677001030 active site 138677001031 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 138677001032 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 138677001033 NAD binding site [chemical binding]; other site 138677001034 homotetramer interface [polypeptide binding]; other site 138677001035 homodimer interface [polypeptide binding]; other site 138677001036 substrate binding site [chemical binding]; other site 138677001037 active site 138677001038 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 138677001039 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 138677001040 active site 138677001041 motif I; other site 138677001042 motif II; other site 138677001043 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 138677001044 Family of unknown function (DUF1790); Region: DUF1790; cl02283 138677001045 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 138677001046 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 138677001047 active site 138677001048 substrate binding site [chemical binding]; other site 138677001049 catalytic site [active] 138677001050 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 138677001051 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 138677001052 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 138677001053 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138677001054 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 138677001055 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677001056 Walker A/P-loop; other site 138677001057 ATP binding site [chemical binding]; other site 138677001058 Q-loop/lid; other site 138677001059 ABC transporter signature motif; other site 138677001060 Walker B; other site 138677001061 D-loop; other site 138677001062 H-loop/switch region; other site 138677001063 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 138677001064 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 138677001065 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 138677001066 IHF - DNA interface [nucleotide binding]; other site 138677001067 IHF dimer interface [polypeptide binding]; other site 138677001068 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 138677001069 active site 138677001070 metal binding site [ion binding]; metal-binding site 138677001071 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 138677001072 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 138677001073 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 138677001074 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138677001075 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 138677001076 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 138677001077 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 138677001078 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 138677001079 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; cl12011 138677001080 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 138677001081 TPR motif; other site 138677001082 binding surface 138677001083 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 138677001084 DnaA N-terminal domain; Region: DnaA_N; pfam11638 138677001085 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 138677001086 Walker A motif; other site 138677001087 ATP binding site [chemical binding]; other site 138677001088 Walker B motif; other site 138677001089 arginine finger; other site 138677001090 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 138677001091 DnaA box-binding interface [nucleotide binding]; other site 138677001092 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 138677001093 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 138677001094 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 138677001095 FMN-binding domain; Region: FMN_bind; cl01081 138677001096 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 138677001097 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 138677001098 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 138677001099 lipoyl attachment site [posttranslational modification]; other site 138677001100 Chlamydial GcvH-like protein upstream region protein; Region: near_not_gcvH; TIGR03076 138677001101 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 138677001102 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 138677001103 putative active site [active] 138677001104 catalytic site [active] 138677001105 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 138677001106 Clp protease ATP binding subunit; Region: clpC; CHL00095 138677001107 Clp amino terminal domain; Region: Clp_N; pfam02861 138677001108 Clp amino terminal domain; Region: Clp_N; pfam02861 138677001109 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 138677001110 Walker A motif; other site 138677001111 ATP binding site [chemical binding]; other site 138677001112 Walker B motif; other site 138677001113 arginine finger; other site 138677001114 UvrB/uvrC motif; Region: UVR; pfam02151 138677001115 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 138677001116 Walker A motif; other site 138677001117 ATP binding site [chemical binding]; other site 138677001118 Walker B motif; other site 138677001119 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 138677001120 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 138677001121 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 138677001122 Ligand Binding Site [chemical binding]; other site 138677001123 Cell division protein ZapA; Region: ZapA; cl01146 138677001124 adhesin; Provisional; Region: PRK09752 138677001125 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001126 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001127 adhesin; Provisional; Region: PRK09752 138677001128 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001129 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001130 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001131 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001132 adhesin; Provisional; Region: PRK09752 138677001133 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001134 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001135 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001136 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001137 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001138 adhesin; Provisional; Region: PRK09752 138677001139 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001140 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001141 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001142 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 138677001143 substrate binding site [chemical binding]; other site 138677001144 zinc-binding site [ion binding]; other site 138677001145 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001146 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001147 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001148 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001149 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001150 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001151 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001152 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001153 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001154 adhesin; Provisional; Region: PRK09752 138677001155 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001156 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001157 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001158 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001159 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001160 Protein of unknown function (DUF575); Region: DUF575; pfam04746 138677001161 Protein of unknown function (DUF562); Region: DUF562; pfam04763 138677001162 Protein of unknown function (DUF575); Region: DUF575; pfam04746 138677001163 Protein of unknown function (DUF562); Region: DUF562; pfam04763 138677001164 Protein of unknown function (DUF575); Region: DUF575; pfam04746 138677001165 Protein of unknown function (DUF562); Region: DUF562; pfam04763 138677001166 Protein of unknown function (DUF562); Region: DUF562; pfam04763 138677001167 Protein of unknown function (DUF575); Region: DUF575; pfam04746 138677001168 Protein of unknown function (DUF575); Region: DUF575; pfam04746 138677001169 Protein of unknown function (DUF562); Region: DUF562; pfam04763 138677001170 Protein of unknown function (DUF562); Region: DUF562; pfam04763 138677001171 Protein of unknown function (DUF575); Region: DUF575; pfam04746 138677001172 adhesin; Provisional; Region: PRK09752 138677001173 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001174 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001175 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001176 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001177 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001178 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001179 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001180 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001181 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001182 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001183 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001184 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001185 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001186 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001187 glycogen branching enzyme; Provisional; Region: PRK05402 138677001188 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 138677001189 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 138677001190 active site 138677001191 catalytic site [active] 138677001192 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 138677001193 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 138677001194 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 138677001195 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 138677001196 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 138677001197 G1 box; other site 138677001198 GTP/Mg2+ binding site [chemical binding]; other site 138677001199 Switch I region; other site 138677001200 G2 box; other site 138677001201 G3 box; other site 138677001202 Switch II region; other site 138677001203 G4 box; other site 138677001204 G5 box; other site 138677001205 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 138677001206 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 138677001207 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 138677001208 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 138677001209 substrate binding pocket [chemical binding]; other site 138677001210 membrane-bound complex binding site; other site 138677001211 hinge residues; other site 138677001212 OTU-like cysteine protease; Region: OTU; cl14910 138677001213 NeuB family; Region: NeuB; cl00496 138677001214 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 138677001215 Sodium:solute symporter family; Region: SSF; cl00456 138677001216 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 138677001217 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 138677001218 nucleotide binding site/active site [active] 138677001219 HIT family signature motif; other site 138677001220 catalytic residue [active] 138677001221 Uncharacterised protein family (UPF0160); Region: UPF0160; cl01749 138677001222 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 138677001223 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 138677001224 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 138677001225 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 138677001226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138677001227 homodimer interface [polypeptide binding]; other site 138677001228 catalytic residue [active] 138677001229 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 138677001230 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 138677001231 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 138677001232 Acetokinase family; Region: Acetate_kinase; cl01029 138677001233 prolyl-tRNA synthetase; Provisional; Region: PRK09194 138677001234 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 attaches...; Region: class_II_aaRS-like_core; cl00268 138677001235 motif 1; other site 138677001236 dimer interface [polypeptide binding]; other site 138677001237 active site 138677001238 motif 2; other site 138677001239 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 138677001240 putative deacylase active site [active] 138677001241 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 attaches...; Region: class_II_aaRS-like_core; cl00268 138677001242 active site 138677001243 motif 3; other site 138677001244 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 138677001245 anticodon binding site; other site 138677001246 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 138677001247 HrcA protein C terminal domain; Region: HrcA; pfam01628 138677001248 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 138677001249 dimer interface [polypeptide binding]; other site 138677001250 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 138677001251 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 138677001252 Exoribonuclease R [Transcription]; Region: VacB; COG0557 138677001253 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 138677001254 RNB domain; Region: RNB; pfam00773 138677001255 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 138677001256 active site 138677001257 DNA binding site [nucleotide binding] 138677001258 Protein of unknown function (DUF502); Region: DUF502; cl01107 138677001259 Chlam_Verruc_Plancto small basic protein; Region: Chlam_Ver_rRNA; TIGR04137 138677001260 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 138677001261 FOG: CBS domain [General function prediction only]; Region: COG0517 138677001262 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 138677001263 Transporter associated domain; Region: CorC_HlyC; cl08393 138677001264 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 138677001265 anti sigma factor interaction site; other site 138677001266 regulatory phosphorylation site [posttranslational modification]; other site 138677001267 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 138677001268 hypothetical protein; Provisional; Region: PRK05926 138677001269 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 138677001270 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 138677001271 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 138677001272 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 138677001273 S-adenosylmethionine binding site [chemical binding]; other site 138677001274 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK11907 138677001275 Uncharacterised protein family (UPF0158); Region: UPF0158; pfam03682 138677001276 diaminopimelate epimerase; Region: DapF; TIGR00652 138677001277 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 138677001278 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 138677001279 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 138677001280 oligomer interface [polypeptide binding]; other site 138677001281 active site residues [active] 138677001282 serine hydroxymethyltransferase; Provisional; Region: PRK13580 138677001283 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 138677001284 dimer interface [polypeptide binding]; other site 138677001285 glycine-pyridoxal phosphate binding site [chemical binding]; other site 138677001286 active site 138677001287 folate binding site [chemical binding]; other site 138677001288 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 138677001289 active site 138677001290 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 138677001291 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 138677001292 Putative zinc ribbon domain; Region: DUF164; pfam02591 138677001293 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 138677001294 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 138677001295 putative active site [active] 138677001296 FOG: CBS domain [General function prediction only]; Region: COG0517 138677001297 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 138677001298 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 138677001299 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 138677001300 E3 interaction surface; other site 138677001301 lipoyl attachment site [posttranslational modification]; other site 138677001302 e3 binding domain; Region: E3_binding; pfam02817 138677001303 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 138677001304 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 138677001305 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 138677001306 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 138677001307 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 138677001308 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 138677001309 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 138677001310 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 138677001311 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 138677001312 S-adenosylmethionine binding site [chemical binding]; other site 138677001313 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 138677001314 Lumazine binding domain; Region: Lum_binding; pfam00677 138677001315 Lumazine binding domain; Region: Lum_binding; pfam00677 138677001316 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 138677001317 ATP cone domain; Region: ATP-cone; pfam03477 138677001318 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 138677001319 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 138677001320 lipoprotein signal peptidase; Provisional; Region: PRK14787 138677001321 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 138677001322 YtxH-like protein; Region: YtxH; cl02079 138677001323 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001324 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001325 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677001326 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677001327 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677001328 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 138677001329 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 138677001330 putative metal binding residues [ion binding]; other site 138677001331 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 138677001332 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138677001333 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 138677001334 ABC-ATPase subunit interface; other site 138677001335 dimer interface [polypeptide binding]; other site 138677001336 putative PBP binding regions; other site 138677001337 GTPase CgtA; Reviewed; Region: obgE; PRK12299 138677001338 GTP1/OBG; Region: GTP1_OBG; pfam01018 138677001339 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 138677001340 G1 box; other site 138677001341 GTP/Mg2+ binding site [chemical binding]; other site 138677001342 Switch I region; other site 138677001343 G2 box; other site 138677001344 G3 box; other site 138677001345 Switch II region; other site 138677001346 G4 box; other site 138677001347 G5 box; other site 138677001348 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 138677001349 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 138677001350 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 138677001351 homotrimer interaction site [polypeptide binding]; other site 138677001352 zinc binding site [ion binding]; other site 138677001353 CDP-binding sites; other site 138677001354 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 138677001355 FAD binding pocket [chemical binding]; other site 138677001356 conserved FAD binding motif [chemical binding]; other site 138677001357 phosphate binding motif [ion binding]; other site 138677001358 beta-alpha-beta structure motif; other site 138677001359 NAD binding pocket [chemical binding]; other site 138677001360 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 138677001361 elongation factor G; Reviewed; Region: PRK12739 138677001362 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 138677001363 G1 box; other site 138677001364 putative GEF interaction site [polypeptide binding]; other site 138677001365 GTP/Mg2+ binding site [chemical binding]; other site 138677001366 Switch I region; other site 138677001367 G2 box; other site 138677001368 G3 box; other site 138677001369 Switch II region; other site 138677001370 G4 box; other site 138677001371 G5 box; other site 138677001372 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 138677001373 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 138677001374 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 138677001375 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 138677001376 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 138677001377 S17 interaction site [polypeptide binding]; other site 138677001378 S8 interaction site; other site 138677001379 16S rRNA interaction site [nucleotide binding]; other site 138677001380 streptomycin interaction site [chemical binding]; other site 138677001381 23S rRNA interaction site [nucleotide binding]; other site 138677001382 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 138677001383 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 138677001384 Opioid growth factor receptor (OGFr) conserved region; Region: OGFr_N; pfam04664 138677001385 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 138677001386 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 138677001387 protein binding site [polypeptide binding]; other site 138677001388 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 138677001389 Catalytic dyad [active] 138677001390 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 138677001391 Chlamydia 15 kDa cysteine-rich outer membrane protein (CRPA); Region: CRPA; pfam05745 138677001392 Chlamydia cysteine-rich outer membrane protein 6; Region: Chlam_OMP6; pfam03504 138677001393 Domain of unknown function DUF11; Region: DUF11; cl15273 138677001394 Domain of unknown function DUF11; Region: DUF11; cl15273 138677001395 Chlamydia cysteine-rich outer membrane protein 3; Region: Chlam_OMP3; pfam03503 138677001396 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 138677001397 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 138677001398 HIGH motif; other site 138677001399 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 138677001400 active site 138677001401 KMSKS motif; other site 138677001402 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 138677001403 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 138677001404 Chlamydia CHLPS protein (DUF818); Region: DUF818; pfam05677 138677001405 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 138677001406 DHH family; Region: DHH; pfam01368 138677001407 DHHA1 domain; Region: DHHA1; pfam02272 138677001408 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 138677001409 Protein export membrane protein; Region: SecD_SecF; cl14618 138677001410 Protein export membrane protein; Region: SecD_SecF; cl14618 138677001411 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 138677001412 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 138677001413 catalytic residue [active] 138677001414 putative FPP diphosphate binding site; other site 138677001415 putative FPP binding hydrophobic cleft; other site 138677001416 dimer interface [polypeptide binding]; other site 138677001417 putative IPP diphosphate binding site; other site 138677001418 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 138677001419 cytidylate kinase; Provisional; Region: cmk; PRK00023 138677001420 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 138677001421 CMP-binding site; other site 138677001422 The sites determining sugar specificity; other site 138677001423 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 138677001424 putative acyl-acceptor binding pocket; other site 138677001425 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 138677001426 arginine-tRNA ligase; Region: PLN02286 138677001427 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 138677001428 active site 138677001429 HIGH motif; other site 138677001430 KMSK motif region; other site 138677001431 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 138677001432 tRNA binding surface [nucleotide binding]; other site 138677001433 anticodon binding site; other site 138677001434 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 138677001435 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 138677001436 hinge; other site 138677001437 active site 138677001438 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 138677001439 Domain of unknown function DUF28; Region: DUF28; cl00361 138677001440 SprT-like family; Region: SprT-like; pfam10263 138677001441 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 138677001442 peptide chain release factor 2; Provisional; Region: PRK05589 138677001443 RF-1 domain; Region: RF-1; cl02875 138677001444 RF-1 domain; Region: RF-1; cl02875 138677001445 SWIB/MDM2 domain; Region: SWIB; cl02489 138677001446 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 138677001447 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 138677001448 putative active site [active] 138677001449 putative metal binding site [ion binding]; other site 138677001450 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 138677001451 substrate binding site; other site 138677001452 dimer interface; other site 138677001453 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 138677001454 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 138677001455 dimerization interface 3.5A [polypeptide binding]; other site 138677001456 active site 138677001457 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 138677001458 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 138677001459 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 138677001460 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 138677001461 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 138677001462 dimer interface [polypeptide binding]; other site 138677001463 phosphorylation site [posttranslational modification] 138677001464 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 138677001465 ATP binding site [chemical binding]; other site 138677001466 Mg2+ binding site [ion binding]; other site 138677001467 G-X-G motif; other site 138677001468 IncA protein; Region: IncA; pfam04156 138677001469 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 138677001470 Response regulator receiver domain; Region: Response_reg; pfam00072 138677001471 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 138677001472 active site 138677001473 phosphorylation site [posttranslational modification] 138677001474 intermolecular recognition site; other site 138677001475 dimerization interface [polypeptide binding]; other site 138677001476 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 138677001477 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 138677001478 Walker A motif; other site 138677001479 ATP binding site [chemical binding]; other site 138677001480 Walker B motif; other site 138677001481 arginine finger; other site 138677001482 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cl00250 138677001483 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 138677001484 Recombination protein O N terminal; Region: RecO_N; pfam11967 138677001485 DNA repair protein RecO; Region: reco; TIGR00613 138677001486 Recombination protein O C terminal; Region: RecO_C; pfam02565 138677001487 Uncharacterised ACR, YagE family COG1723; Region: DUF155; cl00751 138677001488 Domain of unknown function DUF37; Region: DUF37; cl00506 138677001489 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 138677001490 putative peptidoglycan binding site; other site 138677001491 phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial; Region: pheT_bact; TIGR00472 138677001492 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 138677001493 putative tRNA-binding site [nucleotide binding]; other site 138677001494 B3/4 domain; Region: B3_4; cl11458 138677001495 tRNA synthetase B5 domain; Region: B5; cl08394 138677001496 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 138677001497 dimer interface [polypeptide binding]; other site 138677001498 motif 1; other site 138677001499 motif 3; other site 138677001500 motif 2; other site 138677001501 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 138677001502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 138677001503 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 138677001504 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 138677001505 DNA binding site [nucleotide binding] 138677001506 active site 138677001507 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 138677001508 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 138677001509 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 138677001510 dimer interface [polypeptide binding]; other site 138677001511 conserved gate region; other site 138677001512 putative PBP binding loops; other site 138677001513 ABC-ATPase subunit interface; other site 138677001514 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138677001515 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 138677001516 dimer interface [polypeptide binding]; other site 138677001517 conserved gate region; other site 138677001518 ABC-ATPase subunit interface; other site 138677001519 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 138677001520 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 138677001521 peptide binding site [polypeptide binding]; other site 138677001522 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 138677001523 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 138677001524 TPR motif; other site 138677001525 binding surface 138677001526 ferrochelatase; Reviewed; Region: hemH; PRK00035 138677001527 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 138677001528 C-terminal domain interface [polypeptide binding]; other site 138677001529 active site 138677001530 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 138677001531 active site 138677001532 N-terminal domain interface [polypeptide binding]; other site 138677001533 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 138677001534 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 138677001535 substrate binding pocket [chemical binding]; other site 138677001536 membrane-bound complex binding site; other site 138677001537 hinge residues; other site 138677001538 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 138677001539 S-adenosylmethionine binding site [chemical binding]; other site 138677001540 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 138677001541 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 138677001542 putative active site [active] 138677001543 putative metal binding site [ion binding]; other site 138677001544 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 138677001545 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 138677001546 ligand binding site; other site 138677001547 oligomer interface; other site 138677001548 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 138677001549 dimer interface [polypeptide binding]; other site 138677001550 N-terminal domain interface [polypeptide binding]; other site 138677001551 sulfate 1 binding site; other site 138677001552 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138677001553 active site 138677001554 transcription termination factor Rho; Provisional; Region: rho; PRK09376 138677001555 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 138677001556 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 138677001557 RNA binding site [nucleotide binding]; other site 138677001558 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 138677001559 multimer interface [polypeptide binding]; other site 138677001560 Walker A motif; other site 138677001561 ATP binding site [chemical binding]; other site 138677001562 Walker B motif; other site 138677001563 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 138677001564 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 138677001565 CoA-binding site [chemical binding]; other site 138677001566 ATP-binding [chemical binding]; other site 138677001567 DNA polymerase I; Provisional; Region: PRK05755 138677001568 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 138677001569 active site 138677001570 metal binding site 1 [ion binding]; metal-binding site 138677001571 putative 5' ssDNA interaction site; other site 138677001572 metal binding site 3; metal-binding site 138677001573 metal binding site 2 [ion binding]; metal-binding site 138677001574 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 138677001575 putative DNA binding site [nucleotide binding]; other site 138677001576 putative metal binding site [ion binding]; other site 138677001577 3'-5' exonuclease. The 35EXOc domain is responsible for the 3'-5' exonuclease proofreading activity of prokaryotic DNA polymerase I (pol I) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the...; Region: 35EXOc; cd00007 138677001578 active site 138677001579 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 138677001580 active site 138677001581 DNA binding site [nucleotide binding] 138677001582 catalytic site [active] 138677001583 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 138677001584 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 138677001585 tandem repeat interface [polypeptide binding]; other site 138677001586 oligomer interface [polypeptide binding]; other site 138677001587 active site residues [active] 138677001588 TLC ATP/ADP transporter; Region: TLC; cl03940 138677001589 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 138677001590 replicative DNA helicase; Provisional; Region: PRK06321 138677001591 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 138677001592 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 138677001593 Walker A motif; other site 138677001594 ATP binding site [chemical binding]; other site 138677001595 Walker B motif; other site 138677001596 DNA binding loops [nucleotide binding] 138677001597 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 138677001598 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 138677001599 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 138677001600 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 138677001601 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 138677001602 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 138677001603 active site 138677001604 multimer interface [polypeptide binding]; other site 138677001605 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 138677001606 RuvA N terminal domain; Region: RuvA_N; pfam01330 138677001607 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 138677001608 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 includes...; Region: RuvC_resolvase; cd00529 138677001609 active site 138677001610 putative DNA-binding cleft [nucleotide binding]; other site 138677001611 dimer interface [polypeptide binding]; other site 138677001612 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 138677001613 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 138677001614 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 138677001615 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 138677001616 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 138677001617 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 138677001618 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 138677001619 alphaNTD - beta interaction site [polypeptide binding]; other site 138677001620 alphaNTD homodimer interface [polypeptide binding]; other site 138677001621 alphaNTD - beta' interaction site [polypeptide binding]; other site 138677001622 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 138677001623 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 138677001624 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 138677001625 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 138677001626 SecY translocase; Region: SecY; pfam00344 138677001627 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 138677001628 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 138677001629 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 138677001630 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 138677001631 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 138677001632 5S rRNA interface [nucleotide binding]; other site 138677001633 23S rRNA interface [nucleotide binding]; other site 138677001634 L5 interface [polypeptide binding]; other site 138677001635 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 138677001636 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 138677001637 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 138677001638 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 138677001639 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 138677001640 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 138677001641 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 138677001642 KOW motif; Region: KOW; cl00354 138677001643 Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Region: RplX; COG0198 138677001644 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 138677001645 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 138677001646 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 138677001647 23S rRNA interface [nucleotide binding]; other site 138677001648 putative translocon interaction site; other site 138677001649 signal recognition particle (SRP54) interaction site; other site 138677001650 L23 interface [polypeptide binding]; other site 138677001651 trigger factor interaction site; other site 138677001652 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 138677001653 23S rRNA interface [nucleotide binding]; other site 138677001654 5S rRNA interface [nucleotide binding]; other site 138677001655 putative antibiotic binding site [chemical binding]; other site 138677001656 L25 interface [polypeptide binding]; other site 138677001657 L27 interface [polypeptide binding]; other site 138677001658 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 138677001659 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 138677001660 G-X-X-G motif; other site 138677001661 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 138677001662 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 138677001663 putative translocon binding site; other site 138677001664 protein-rRNA interface [nucleotide binding]; other site 138677001665 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 138677001666 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 138677001667 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 138677001668 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 138677001669 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 138677001670 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 138677001671 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 138677001672 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 138677001673 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 138677001674 putative active site [active] 138677001675 substrate binding site [chemical binding]; other site 138677001676 putative cosubstrate binding site; other site 138677001677 catalytic site [active] 138677001678 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 138677001679 substrate binding site [chemical binding]; other site 138677001680 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 138677001681 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 138677001682 active site 138677001683 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 138677001684 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 138677001685 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 138677001686 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 138677001687 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 138677001688 putative active site [active] 138677001689 catalytic triad [active] 138677001690 putative dimer interface [polypeptide binding]; other site 138677001691 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 138677001692 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 138677001693 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 138677001694 active site 138677001695 substrate binding site [chemical binding]; other site 138677001696 catalytic site [active] 138677001697 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 138677001698 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 138677001699 Protein of unknown function (DUF2709); Region: DUF2709; pfam10915 138677001700 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 138677001701 catalytic residues [active] 138677001702 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 138677001703 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 138677001704 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 138677001705 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 138677001706 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 138677001707 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 138677001708 dimer interface [polypeptide binding]; other site 138677001709 anticodon binding site; other site 138677001710 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 the...; Region: AspRS_core; cd00777 138677001711 homodimer interface [polypeptide binding]; other site 138677001712 motif 1; other site 138677001713 active site 138677001714 motif 2; other site 138677001715 GAD domain; Region: GAD; pfam02938 138677001716 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 attaches...; Region: class_II_aaRS-like_core; cl00268 138677001717 active site 138677001718 motif 3; other site 138677001719 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 138677001720 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 ATP-dependent...; Region: HisRS-like_core; cd00773 138677001721 dimer interface [polypeptide binding]; other site 138677001722 motif 1; other site 138677001723 active site 138677001724 motif 2; other site 138677001725 motif 3; other site 138677001726 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 138677001727 anticodon binding site; other site 138677001728 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 138677001729 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 138677001730 putative substrate translocation pore; other site 138677001731 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 138677001732 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 138677001733 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 138677001734 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 138677001735 generic binding surface I; other site 138677001736 generic binding surface II; other site 138677001737 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 138677001738 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 138677001739 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; cl00075 138677001740 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 138677001741 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 138677001742 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; cl12011 138677001743 Phosphoglycerate kinase; Region: PGK; pfam00162 138677001744 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 138677001745 substrate binding site [chemical binding]; other site 138677001746 hinge regions; other site 138677001747 ADP binding site [chemical binding]; other site 138677001748 catalytic site [active] 138677001749 Phosphate transporter family; Region: PHO4; cl00396 138677001750 Phosphate transporter family; Region: PHO4; cl00396 138677001751 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 138677001752 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 138677001753 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 138677001754 Walker A/P-loop; other site 138677001755 ATP binding site [chemical binding]; other site 138677001756 Q-loop/lid; other site 138677001757 ABC transporter signature motif; other site 138677001758 Walker B; other site 138677001759 D-loop; other site 138677001760 H-loop/switch region; other site 138677001761 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 138677001762 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 138677001763 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 138677001764 Walker A/P-loop; other site 138677001765 ATP binding site [chemical binding]; other site 138677001766 Q-loop/lid; other site 138677001767 ABC transporter signature motif; other site 138677001768 Walker B; other site 138677001769 D-loop; other site 138677001770 H-loop/switch region; other site 138677001771 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 138677001772 ParB-like partition proteins; Region: parB_part; TIGR00180 138677001773 ParB-like nuclease domain; Region: ParBc; cl02129 138677001774 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 138677001775 putative active site [active] 138677001776 putative metal binding site [ion binding]; other site 138677001777 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 138677001778 Aminotransferase class-V; Region: Aminotran_5; pfam00266 138677001779 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138677001780 catalytic residue [active] 138677001781 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 138677001782 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 138677001783 FeS assembly ATPase SufC; Region: sufC; TIGR01978 138677001784 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 138677001785 Walker A/P-loop; other site 138677001786 ATP binding site [chemical binding]; other site 138677001787 Q-loop/lid; other site 138677001788 ABC transporter signature motif; other site 138677001789 Walker B; other site 138677001790 D-loop; other site 138677001791 H-loop/switch region; other site 138677001792 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 138677001793 putative ABC transporter; Region: ycf24; CHL00085 138677001794 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 138677001795 binding surface 138677001796 TPR motif; other site 138677001797 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 138677001798 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 138677001799 binding surface 138677001800 TPR motif; other site 138677001801 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 138677001802 binding surface 138677001803 TPR motif; other site 138677001804 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 138677001805 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 138677001806 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 138677001807 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 138677001808 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 138677001809 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 138677001810 rRNA interaction site [nucleotide binding]; other site 138677001811 S8 interaction site; other site 138677001812 putative laminin-1 binding site; other site 138677001813 elongation factor Ts; Provisional; Region: tsf; PRK09377 138677001814 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 138677001815 Elongation factor TS; Region: EF_TS; pfam00889 138677001816 Elongation factor TS; Region: EF_TS; pfam00889 138677001817 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 138677001818 putative nucleotide binding site [chemical binding]; other site 138677001819 uridine monophosphate binding site [chemical binding]; other site 138677001820 homohexameric interface [polypeptide binding]; other site 138677001821 ribosome recycling factor; Reviewed; Region: frr; PRK00083 138677001822 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 round of...; Region: RRF; cd00520 138677001823 hinge region; other site 138677001824 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 138677001825 UvrB/uvrC motif; Region: UVR; pfam02151 138677001826 Arginine kinase [Amino acid transport and metabolism]; Region: COG3869 138677001827 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 138677001828 ADP binding site [chemical binding]; other site 138677001829 phosphagen binding site; other site 138677001830 substrate specificity loop; other site 138677001831 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 138677001832 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 138677001833 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 138677001834 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 138677001835 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 138677001836 Catalytic domain of Protein Kinases; Region: PKc; cd00180 138677001837 active site 138677001838 ATP binding site [chemical binding]; other site 138677001839 substrate binding site [chemical binding]; other site 138677001840 activation loop (A-loop); other site 138677001841 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 138677001842 type III secretion system protein; Validated; Region: PRK05933 138677001843 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 138677001844 type III secretion system ATPase; Provisional; Region: PRK06315 138677001845 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 138677001846 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 138677001847 Walker A motif/ATP binding site; other site 138677001848 Walker B motif; other site 138677001849 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 138677001850 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 138677001851 phosphopeptide binding site; other site 138677001852 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 138677001853 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 138677001854 phosphopeptide binding site; other site 138677001855 BON domain; Region: BON; cl02771 138677001856 Tir chaperone protein (CesT); Region: CesT; cl08444 138677001857 glutamyl-tRNA reductase; Validated; Region: hemA; PRK00676 138677001858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677001859 NAD(P) binding pocket [chemical binding]; other site 138677001860 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 138677001861 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; cl00075 138677001862 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 138677001863 anchoring element; other site 138677001864 dimer interface [polypeptide binding]; other site 138677001865 ATP binding site [chemical binding]; other site 138677001866 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 138677001867 active site 138677001868 putative metal-binding site [ion binding]; other site 138677001869 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 138677001870 DNA Topoisomerase IV; Region: TOP4c; smart00434 138677001871 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 in DNA...; Region: TOP4c; cl00148 138677001872 CAP-like domain; other site 138677001873 active site 138677001874 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 138677001875 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 138677001876 RNA binding surface [nucleotide binding]; other site 138677001877 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 138677001878 active site 138677001879 hypothetical protein; Provisional; Region: PRK00468; cl00794 138677001880 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 138677001881 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 138677001882 NeuB family; Region: NeuB; cl00496 138677001883 Protein of unknown function (DUF1137); Region: DUF1137; pfam06587 138677001884 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 138677001885 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 138677001886 Walker A/P-loop; other site 138677001887 ATP binding site [chemical binding]; other site 138677001888 Q-loop/lid; other site 138677001889 ABC transporter signature motif; other site 138677001890 Walker B; other site 138677001891 D-loop; other site 138677001892 H-loop/switch region; other site 138677001893 6-phosphogluconate dehydrogenase; Provisional; Region: PTZ00142 138677001894 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 138677001895 Protein of unknown function, DUF582; Region: DUF582; pfam04518 138677001896 Protein of unknown function, DUF582; Region: DUF582; pfam04518 138677001897 MviN-like protein; Region: MVIN; pfam03023 138677001898 AP endonuclease family 2; Region: AP2Ec; smart00518 138677001899 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 138677001900 AP (apurinic/apyrimidinic) site pocket; other site 138677001901 DNA interaction; other site 138677001902 Metal-binding active site; metal-binding site 138677001903 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 138677001904 ribosomal protein S4, bacterial/organelle type; Region: rpsD_bact; TIGR01017 138677001905 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 138677001906 RNA binding surface [nucleotide binding]; other site 138677001907 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 138677001908 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 138677001909 active site residue [active] 138677001910 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 138677001911 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 138677001912 ATP-binding site [chemical binding]; other site 138677001913 Sugar specificity; other site 138677001914 Pyrimidine base specificity; other site 138677001915 H+ Antiporter protein; Region: 2A0121; TIGR00900 138677001916 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 138677001917 putative substrate translocation pore; other site 138677001918 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 138677001919 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 138677001920 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 138677001921 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677001922 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677001923 rod shape-determining protein MreC; Provisional; Region: PRK14872 138677001924 rod shape-determining protein MreC; Region: MreC; pfam04085 138677001925 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 138677001926 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 138677001927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138677001928 homodimer interface [polypeptide binding]; other site 138677001929 catalytic residue [active] 138677001930 transcript cleavage factor/unknown domain fusion protein; Validated; Region: PRK06330 138677001931 domain; Region: GreA_GreB_N; pfam03449 138677001932 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 138677001933 NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit; Region: nqrA; TIGR01936 138677001934 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 138677001935 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 138677001936 dimer interface [polypeptide binding]; other site 138677001937 allosteric magnesium binding site [ion binding]; other site 138677001938 active site 138677001939 aspartate-rich active site metal binding site; other site 138677001940 Schiff base residues; other site 138677001941 Thymidylate synthase complementing protein; Region: Thy1; cl03630 138677001942 Thymidylate synthase complementing protein; Region: Thy1; cl03630 138677001943 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 138677001944 substrate binding pocket [chemical binding]; other site 138677001945 chain length determination region; other site 138677001946 substrate-Mg2+ binding site; other site 138677001947 catalytic residues [active] 138677001948 aspartate-rich region 1; other site 138677001949 active site lid residues [active] 138677001950 aspartate-rich region 2; other site 138677001951 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 138677001952 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138677001953 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 138677001954 DNA binding site [nucleotide binding] 138677001955 Protein of unknown function (DUF1347); Region: DUF1347; pfam07079 138677001956 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 138677001957 Putative ATPase (DUF699); Region: DUF699; pfam05127 138677001958 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 138677001959 Uncharacterised protein family (UPF0242); Region: UPF0242; pfam06785 138677001960 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 138677001961 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 138677001962 RNA polymerase sigma factor SigC; Validated; Region: PRK07598 138677001963 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 138677001964 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138677001965 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 138677001966 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 138677001967 DNA binding residues [nucleotide binding] 138677001968 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 138677001969 homooctamer interface [polypeptide binding]; other site 138677001970 active site 138677001971 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 138677001972 catalytic center binding site [active] 138677001973 ATP binding site [chemical binding]; other site 138677001974 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 138677001975 dihydropteroate synthase; Region: DHPS; TIGR01496 138677001976 substrate binding pocket [chemical binding]; other site 138677001977 dimer interface [polypeptide binding]; other site 138677001978 inhibitor binding site; inhibition site 138677001979 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 138677001980 folate binding site [chemical binding]; other site 138677001981 NADP+ binding site [chemical binding]; other site 138677001982 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 138677001983 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 138677001984 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 138677001985 recombinase A; Provisional; Region: recA; PRK09354 138677001986 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 138677001987 hexamer interface [polypeptide binding]; other site 138677001988 Walker A motif; other site 138677001989 ATP binding site [chemical binding]; other site 138677001990 Walker B motif; other site 138677001991 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 138677001992 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 138677001993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 138677001994 YGGT family; Region: YGGT; cl00508 138677001995 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 138677001996 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 138677001997 FMN binding site [chemical binding]; other site 138677001998 active site 138677001999 catalytic residues [active] 138677002000 substrate binding site [chemical binding]; other site 138677002001 DNA topoisomerase I/SWI domain fusion protein; Validated; Region: PRK06319 138677002002 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 138677002003 active site 138677002004 interdomain interaction site; other site 138677002005 putative metal-binding site [ion binding]; other site 138677002006 nucleotide binding site [chemical binding]; other site 138677002007 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 138677002008 domain I; other site 138677002009 DNA binding groove [nucleotide binding] 138677002010 phosphate binding site [ion binding]; other site 138677002011 domain II; other site 138677002012 domain III; other site 138677002013 nucleotide binding site [chemical binding]; other site 138677002014 catalytic site [active] 138677002015 domain IV; other site 138677002016 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 138677002017 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 138677002018 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 138677002019 SWIB/MDM2 domain; Region: SWIB; cl02489 138677002020 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 138677002021 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 138677002022 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 138677002023 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 138677002024 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 138677002025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677002026 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 138677002027 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 138677002028 ligand binding site [chemical binding]; other site 138677002029 active site 138677002030 UGI interface [polypeptide binding]; other site 138677002031 catalytic site [active] 138677002032 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 138677002033 active site 138677002034 dimerization interface [polypeptide binding]; other site 138677002035 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 138677002036 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 138677002037 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 138677002038 ring oligomerisation interface [polypeptide binding]; other site 138677002039 ATP/Mg binding site [chemical binding]; other site 138677002040 stacking interactions; other site 138677002041 hinge regions; other site 138677002042 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 138677002043 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 138677002044 dimer interface [polypeptide binding]; other site 138677002045 decamer (pentamer of dimers) interface [polypeptide binding]; other site 138677002046 catalytic triad [active] 138677002047 peroxidatic and resolving cysteines [active] 138677002048 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 138677002049 Ependymin; Region: Ependymin; cl02428 138677002050 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 138677002051 putative peptidoglycan binding site; other site 138677002052 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 138677002053 ligand binding site [chemical binding]; other site 138677002054 translocation protein TolB; Provisional; Region: tolB; PRK01029 138677002055 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 138677002056 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 138677002057 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 138677002058 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 138677002059 LysE type translocator; Region: LysE; cl00565 138677002060 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 138677002061 DsbD alpha interface [polypeptide binding]; other site 138677002062 catalytic residues [active] 138677002063 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 138677002064 active site 138677002065 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 138677002066 putative Iron-sulfur protein interface [polypeptide binding]; other site 138677002067 proximal heme binding site [chemical binding]; other site 138677002068 putative dimer interface [polypeptide binding]; other site 138677002069 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 138677002070 proximal heme binding site [chemical binding]; other site 138677002071 Iron-sulfur protein interface; other site 138677002072 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 138677002073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677002074 domain; Region: Succ_DH_flav_C; pfam02910 138677002075 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 138677002076 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 138677002077 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 138677002078 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 138677002079 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 138677002080 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 138677002081 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 138677002082 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 138677002083 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677002084 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 138677002085 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002086 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002087 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677002088 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 138677002089 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002090 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002091 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002092 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 138677002093 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 138677002094 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002095 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002096 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002097 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 138677002098 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002099 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002100 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 138677002101 enolase; Provisional; Region: eno; PRK00077 138677002102 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 138677002103 dimer interface [polypeptide binding]; other site 138677002104 metal binding site [ion binding]; metal-binding site 138677002105 substrate binding pocket [chemical binding]; other site 138677002106 excinuclease ABC subunit B; Provisional; Region: PRK05298 138677002107 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 138677002108 ATP binding site [chemical binding]; other site 138677002109 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 138677002110 nucleotide binding region [chemical binding]; other site 138677002111 ATP-binding site [chemical binding]; other site 138677002112 Ultra-violet resistance protein B; Region: UvrB; pfam12344 138677002113 UvrB/uvrC motif; Region: UVR; pfam02151 138677002114 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 138677002115 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 138677002116 active site 138677002117 HIGH motif; other site 138677002118 dimer interface [polypeptide binding]; other site 138677002119 KMSKS motif; other site 138677002120 Uncharacterised protein family (UPF0137); Region: UPF0137; pfam03677 138677002121 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 138677002122 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677002123 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 138677002124 Ubiquitin-like proteins; Region: UBQ; cl00155 138677002125 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 138677002126 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 138677002127 active site 138677002128 dimer interface [polypeptide binding]; other site 138677002129 motif 1; other site 138677002130 motif 2; other site 138677002131 motif 3; other site 138677002132 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 138677002133 anticodon binding site; other site 138677002134 EamA-like transporter family; Region: EamA; cl01037 138677002135 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 138677002136 EamA-like transporter family; Region: EamA; cl01037 138677002137 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 138677002138 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 138677002139 Tetratricopeptide repeat; Region: TPR_3; pfam07720 138677002140 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 138677002141 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 138677002142 ATP binding site [chemical binding]; other site 138677002143 Mg2+ binding site [ion binding]; other site 138677002144 G-X-G motif; other site 138677002145 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 138677002146 ATP binding site [chemical binding]; other site 138677002147 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 138677002148 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 138677002149 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 138677002150 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 138677002151 active site 138677002152 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 138677002153 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 138677002154 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 138677002155 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 138677002156 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 138677002157 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 138677002158 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 138677002159 Walker A motif; other site 138677002160 ATP binding site [chemical binding]; other site 138677002161 Walker B motif; other site 138677002162 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 138677002163 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 138677002164 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 138677002165 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 138677002166 Protein of unknown function (DUF1494); Region: DUF1494; pfam07379 138677002167 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 138677002168 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 138677002169 FliP family; Region: FliP; cl00593 138677002170 FliP family; Region: FliP; cl00593 138677002171 type III secretion system protein; Validated; Region: PRK06328 138677002172 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 138677002173 Flagellar assembly protein FliH; Region: FliH; pfam02108 138677002174 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 138677002175 lipoyl synthase; Provisional; Region: PRK05481 138677002176 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 138677002177 FeS/SAM binding site; other site 138677002178 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 138677002179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677002180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677002181 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 138677002182 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 138677002183 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 138677002184 ATP binding site [chemical binding]; other site 138677002185 putative Mg++ binding site [ion binding]; other site 138677002186 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 138677002187 nucleotide binding region [chemical binding]; other site 138677002188 ATP-binding site [chemical binding]; other site 138677002189 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 138677002190 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 138677002191 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 138677002192 minor groove reading motif; other site 138677002193 helix-hairpin-helix signature motif; other site 138677002194 substrate binding pocket [chemical binding]; other site 138677002195 active site 138677002196 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 138677002197 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 138677002198 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 138677002199 G1 box; other site 138677002200 GTP/Mg2+ binding site [chemical binding]; other site 138677002201 Switch I region; other site 138677002202 G2 box; other site 138677002203 Switch II region; other site 138677002204 G3 box; other site 138677002205 G4 box; other site 138677002206 G5 box; other site 138677002207 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 138677002208 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 138677002209 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 138677002210 binding surface 138677002211 TPR motif; other site 138677002212 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12899 138677002213 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 138677002214 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 138677002215 nucleotide binding region [chemical binding]; other site 138677002216 ATP-binding site [chemical binding]; other site 138677002217 GTP-binding protein Der; Reviewed; Region: PRK00093 138677002218 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 138677002219 G1 box; other site 138677002220 GTP/Mg2+ binding site [chemical binding]; other site 138677002221 Switch I region; other site 138677002222 G2 box; other site 138677002223 Switch II region; other site 138677002224 G3 box; other site 138677002225 G4 box; other site 138677002226 G5 box; other site 138677002227 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 138677002228 G1 box; other site 138677002229 GTP/Mg2+ binding site [chemical binding]; other site 138677002230 Switch I region; other site 138677002231 G2 box; other site 138677002232 G3 box; other site 138677002233 Switch II region; other site 138677002234 G4 box; other site 138677002235 G5 box; other site 138677002236 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 138677002237 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 138677002238 active site 138677002239 NTP binding site [chemical binding]; other site 138677002240 metal binding triad [ion binding]; metal-binding site 138677002241 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 138677002242 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 138677002243 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 138677002244 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 138677002245 Walker A motif; other site 138677002246 ATP binding site [chemical binding]; other site 138677002247 Walker B motif; other site 138677002248 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 138677002249 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 138677002250 oligomer interface [polypeptide binding]; other site 138677002251 active site residues [active] 138677002252 trigger factor; Provisional; Region: tig; PRK01490 138677002253 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 138677002254 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 138677002255 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 138677002256 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 138677002257 ATP binding site [chemical binding]; other site 138677002258 putative Mg++ binding site [ion binding]; other site 138677002259 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 138677002260 nucleotide binding region [chemical binding]; other site 138677002261 ATP-binding site [chemical binding]; other site 138677002262 rod shape-determining protein MreB; Provisional; Region: PRK13927 138677002263 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 138677002264 ATP binding site [chemical binding]; other site 138677002265 profilin binding site; other site 138677002266 gelsolin binding site; other site 138677002267 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 138677002268 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 138677002269 active site 138677002270 substrate-binding site [chemical binding]; other site 138677002271 metal-binding site [ion binding] 138677002272 GTP binding site [chemical binding]; other site 138677002273 Protein of unknown function, DUF582; Region: DUF582; pfam04518 138677002274 Effector from type III secretion system; Region: Effector_1; pfam04518 138677002275 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 138677002276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677002277 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 138677002278 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 138677002279 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 138677002280 substrate binding site; other site 138677002281 dimerization interface; other site 138677002282 type III secretion system ATPase; Validated; Region: PRK05922 138677002283 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 138677002284 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677002285 Walker A motif; other site 138677002286 ATP binding site [chemical binding]; other site 138677002287 Walker B motif; other site 138677002288 Flagellar assembly protein FliH; Region: FliH; pfam02108 138677002289 type III secretion system protein; Validated; Region: PRK05934 138677002290 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 138677002291 MgtE intracellular N domain; Region: MgtE_N; cl15244 138677002292 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 138677002293 NifU-like domain; Region: NifU; cl00484 138677002294 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 138677002295 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 138677002296 catalytic core [active] 138677002297 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 138677002298 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 138677002299 RNA binding surface [nucleotide binding]; other site 138677002300 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 138677002301 active site 138677002302 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 138677002303 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 138677002304 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 138677002305 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 138677002306 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 138677002307 CCC1-related protein family; Region: CCC1_like_1; cd02437 138677002308 seryl-tRNA synthetase; Provisional; Region: PRK05431 138677002309 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 138677002310 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 bound...; Region: SerRS_core; cd00770 138677002311 dimer interface [polypeptide binding]; other site 138677002312 active site 138677002313 motif 1; other site 138677002314 motif 2; other site 138677002315 motif 3; other site 138677002316 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 138677002317 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 138677002318 catalytic motif [active] 138677002319 Zn binding site [ion binding]; other site 138677002320 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 138677002321 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 138677002322 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 138677002323 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 138677002324 dimerization interface [polypeptide binding]; other site 138677002325 active site 138677002326 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 138677002327 homopentamer interface [polypeptide binding]; other site 138677002328 active site 138677002329 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 138677002330 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 138677002331 substrate binding site [chemical binding]; other site 138677002332 SET domain; Region: SET; cl02566 138677002333 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 138677002334 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 138677002335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677002336 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 138677002337 Protein of unknown function (DUF687); Region: DUF687; pfam05095 138677002338 Protein of unknown function (DUF687); Region: DUF687; pfam05095 138677002339 NADH:ubiquinone oxidoreductase, Na(+)-translocating, F subunit; Region: nqrF; TIGR01941 138677002340 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 138677002341 catalytic loop [active] 138677002342 iron binding site [ion binding]; other site 138677002343 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 138677002344 FAD binding pocket [chemical binding]; other site 138677002345 FAD binding motif [chemical binding]; other site 138677002346 phosphate binding motif [ion binding]; other site 138677002347 beta-alpha-beta structure motif; other site 138677002348 NAD binding pocket [chemical binding]; other site 138677002349 Preprotein translocase subunit; Region: YajC; cl00806 138677002350 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; cl12011 138677002351 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 138677002352 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 138677002353 S-adenosylmethionine binding site [chemical binding]; other site 138677002354 Histone H1-like protein Hc1; Region: Hc1; pfam07432 138677002355 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 138677002356 Tetratricopeptide repeat; Region: TPR_3; pfam07720 138677002357 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 138677002358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677002359 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 138677002360 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 138677002361 HemN C-terminal domain; Region: HemN_C; pfam06969 138677002362 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 138677002363 substrate binding site [chemical binding]; other site 138677002364 active site 138677002365 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 138677002366 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 138677002367 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 138677002368 ATP binding site [chemical binding]; other site 138677002369 putative Mg++ binding site [ion binding]; other site 138677002370 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 138677002371 nucleotide binding region [chemical binding]; other site 138677002372 ATP-binding site [chemical binding]; other site 138677002373 TRCF domain; Region: TRCF; cl04088 138677002374 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 138677002375 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 formation of...; Region: AlaRS_core; cd00673 138677002376 motif 1; other site 138677002377 active site 138677002378 motif 2; other site 138677002379 motif 3; other site 138677002380 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 138677002381 DHHA1 domain; Region: DHHA1; pfam02272 138677002382 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 138677002383 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 138677002384 TPP-binding site [chemical binding]; other site 138677002385 dimer interface [polypeptide binding]; other site 138677002386 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 138677002387 PYR/PP interface [polypeptide binding]; other site 138677002388 dimer interface [polypeptide binding]; other site 138677002389 TPP binding site [chemical binding]; other site 138677002390 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 138677002391 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 138677002392 elongation factor P; Validated; Region: PRK00529 138677002393 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 138677002394 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 138677002395 RNA binding site [nucleotide binding]; other site 138677002396 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 138677002397 RNA binding site [nucleotide binding]; other site 138677002398 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 138677002399 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 138677002400 putative active site [active] 138677002401 putative metal binding site [ion binding]; other site 138677002402 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 138677002403 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 138677002404 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 138677002405 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 138677002406 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 138677002407 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 138677002408 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138677002409 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 138677002410 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 138677002411 Mg++ binding site [ion binding]; other site 138677002412 putative catalytic motif [active] 138677002413 putative substrate binding site [chemical binding]; other site 138677002414 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 138677002415 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 138677002416 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138677002417 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 138677002418 putative peptidoglycan binding site; other site 138677002419 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 138677002420 putative peptidoglycan binding site; other site 138677002421 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 138677002422 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 138677002423 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 138677002424 active site 138677002425 homodimer interface [polypeptide binding]; other site 138677002426 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: PRK14573 138677002427 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 138677002428 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 138677002429 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138677002430 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 138677002431 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 138677002432 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 138677002433 hypothetical protein; Provisional; Region: PRK00468; cl00794 138677002434 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 138677002435 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 138677002436 anti sigma factor interaction site; other site 138677002437 regulatory phosphorylation site [posttranslational modification]; other site 138677002438 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 138677002439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677002440 hypothetical protein; Provisional; Region: PRK05927 138677002441 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 138677002442 FeS/SAM binding site; other site 138677002443 Cytochrome c552; Region: Cytochrom_C552; pfam02335 138677002444 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 138677002445 Domain of unknown function DUF143; Region: DUF143; cl00519 138677002446 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 138677002447 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 138677002448 dimer interface [polypeptide binding]; other site 138677002449 active site 138677002450 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 138677002451 active site 138677002452 Ap4A binding cleft/pocket [chemical binding]; other site 138677002453 P4 phosphate binding site; other site 138677002454 nudix motif; other site 138677002455 putative P2/P3 phosphate binding site [ion binding]; other site 138677002456 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 138677002457 dimer interface [polypeptide binding]; other site 138677002458 substrate binding site [chemical binding]; other site 138677002459 metal binding sites [ion binding]; metal-binding site 138677002460 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 138677002461 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 138677002462 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 138677002463 NAD binding site [chemical binding]; other site 138677002464 Phe binding site; other site 138677002465 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 138677002466 active site 138677002467 putative lithium-binding site [ion binding]; other site 138677002468 substrate binding site [chemical binding]; other site 138677002469 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 138677002470 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 138677002471 putative acyl-acceptor binding pocket; other site 138677002472 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 138677002473 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 138677002474 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 138677002475 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138677002476 catalytic residue [active] 138677002477 primosome assembly protein PriA; Validated; Region: PRK05580 138677002478 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 138677002479 ATP binding site [chemical binding]; other site 138677002480 putative Mg++ binding site [ion binding]; other site 138677002481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677002482 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 138677002483 Chlamydia CHLPS protein (DUF818); Region: DUF818; pfam05677 138677002484 Chlamydia CHLPS protein (DUF818); Region: DUF818; pfam05677 138677002485 Chlamydia CHLPS protein (DUF818); Region: DUF818; pfam05677 138677002486 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 138677002487 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 138677002488 dimer interface [polypeptide binding]; other site 138677002489 putative anticodon binding site; other site 138677002490 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 attaches...; Region: class_II_aaRS-like_core; cl00268 138677002491 motif 1; other site 138677002492 dimer interface [polypeptide binding]; other site 138677002493 active site 138677002494 motif 2; other site 138677002495 motif 3; other site 138677002496 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 138677002497 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 138677002498 active site 138677002499 HIGH motif; other site 138677002500 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 138677002501 KMSKS motif; other site 138677002502 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 138677002503 tRNA binding surface [nucleotide binding]; other site 138677002504 anticodon binding site; other site 138677002505 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 138677002506 Ribonuclease P; Region: Ribonuclease_P; cl00457 138677002507 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 138677002508 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 138677002509 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 138677002510 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 138677002511 Asp23 family; Region: Asp23; cl00574 138677002512 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 138677002513 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 138677002514 GIY-YIG motif/motif A; other site 138677002515 active site 138677002516 catalytic site [active] 138677002517 putative DNA binding site [nucleotide binding]; other site 138677002518 metal binding site [ion binding]; metal-binding site 138677002519 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 138677002520 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 138677002521 MutS domain I; Region: MutS_I; pfam01624 138677002522 MutS domain II; Region: MutS_II; pfam05188 138677002523 MutS family domain IV; Region: MutS_IV; pfam05190 138677002524 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 138677002525 Walker A/P-loop; other site 138677002526 ATP binding site [chemical binding]; other site 138677002527 Q-loop/lid; other site 138677002528 ABC transporter signature motif; other site 138677002529 Walker B; other site 138677002530 D-loop; other site 138677002531 H-loop/switch region; other site 138677002532 DNA primase; Validated; Region: dnaG; PRK05667 138677002533 CHC2 zinc finger; Region: zf-CHC2; cl15369 138677002534 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 138677002535 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 138677002536 active site 138677002537 metal binding site [ion binding]; metal-binding site 138677002538 interdomain interaction site; other site 138677002539 glycyl-tRNA synthetase; Provisional; Region: PRK14908 138677002540 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 138677002541 dimer interface [polypeptide binding]; other site 138677002542 motif 1; other site 138677002543 active site 138677002544 motif 2; other site 138677002545 motif 3; other site 138677002546 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 138677002547 glycogen synthase; Provisional; Region: glgA; PRK00654 138677002548 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 138677002549 ADP-binding pocket [chemical binding]; other site 138677002550 homodimer interface [polypeptide binding]; other site 138677002551 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 138677002552 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 138677002553 5S rRNA interface [nucleotide binding]; other site 138677002554 CTC domain interface [polypeptide binding]; other site 138677002555 L16 interface [polypeptide binding]; other site 138677002556 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 138677002557 putative active site [active] 138677002558 catalytic residue [active] 138677002559 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 138677002560 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 138677002561 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 138677002562 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 138677002563 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 138677002564 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK00650 138677002565 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 138677002566 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK00650 138677002567 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 138677002568 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 138677002569 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 138677002570 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 138677002571 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 138677002572 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT; Region: LPLAT_GPAT; cd07985 138677002573 putative G3P-binding pocket; other site 138677002574 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 138677002575 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 138677002576 homodimer interface [polypeptide binding]; other site 138677002577 oligonucleotide binding site [chemical binding]; other site 138677002578 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 138677002579 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 138677002580 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 138677002581 adhesin; Provisional; Region: PRK09752 138677002582 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 138677002583 Autotransporter beta-domain; Region: Autotransporter; cl02365 138677002584 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 138677002585 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 138677002586 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 138677002587 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK01021 138677002588 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 138677002589 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 138677002590 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 138677002591 poly(A) polymerase; Region: pcnB; TIGR01942 138677002592 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 138677002593 active site 138677002594 NTP binding site [chemical binding]; other site 138677002595 metal binding triad [ion binding]; metal-binding site 138677002596 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 138677002597 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 138677002598 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 138677002599 active site 138677002600 substrate binding site [chemical binding]; other site 138677002601 metal binding site [ion binding]; metal-binding site 138677002602 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 138677002603 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 138677002604 glutaminase active site [active] 138677002605 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 138677002606 dimer interface [polypeptide binding]; other site 138677002607 active site 138677002608 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 138677002609 dimer interface [polypeptide binding]; other site 138677002610 active site 138677002611 Amino acid permease; Region: AA_permease; cl00524 138677002612 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 138677002613 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 138677002614 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 138677002615 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677002616 succinyl-CoA synthetase, beta subunit; Region: sucCoAbeta; TIGR01016 138677002617 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 138677002618 CoA-ligase; Region: Ligase_CoA; pfam00549 138677002619 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 138677002620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677002621 CoA-ligase; Region: Ligase_CoA; cl02894 138677002622 Family of unknown function (DUF648); Region: DUF648; pfam04890 138677002623 Family of unknown function (DUF648); Region: DUF648; pfam04890 138677002624 Family of unknown function (DUF648); Region: DUF648; pfam04890 138677002625 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 138677002626 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 138677002627 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 138677002628 protein binding site [polypeptide binding]; other site 138677002629 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 138677002630 protein binding site [polypeptide binding]; other site 138677002631 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 138677002632 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 138677002633 metal binding site [ion binding]; metal-binding site 138677002634 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 138677002635 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 138677002636 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 138677002637 Peptidase M16C associated; Region: M16C_assoc; pfam08367 138677002638 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 138677002639 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 138677002640 RmuC family; Region: RmuC; pfam02646 138677002641 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 138677002642 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 138677002643 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12365 138677002644 ATP cone domain; Region: ATP-cone; pfam03477 138677002645 ATP cone domain; Region: ATP-cone; pfam03477 138677002646 Class I ribonucleotide reductase; Region: RNR_I; cd01679 138677002647 active site 138677002648 dimer interface [polypeptide binding]; other site 138677002649 catalytic residues [active] 138677002650 effector binding site; other site 138677002651 R2 peptide binding site; other site 138677002652 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 138677002653 dimer interface [polypeptide binding]; other site 138677002654 putative radical transfer pathway; other site 138677002655 diiron center [ion binding]; other site 138677002656 tyrosyl radical; other site 138677002657 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; cl12011 138677002658 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; cl12011 138677002659 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; cl12011 138677002660 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 138677002661 FAD binding domain; Region: FAD_binding_4; pfam01565 138677002662 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 138677002663 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 138677002664 putative RNA binding site [nucleotide binding]; other site 138677002665 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 138677002666 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 138677002667 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 138677002668 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 138677002669 ribosomal protein L20; Region: rpl20; CHL00068 138677002670 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 138677002671 23S rRNA binding site [nucleotide binding]; other site 138677002672 L21 binding site [polypeptide binding]; other site 138677002673 L13 binding site [polypeptide binding]; other site 138677002674 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 138677002675 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 138677002676 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 138677002677 dimer interface [polypeptide binding]; other site 138677002678 motif 1; other site 138677002679 active site 138677002680 motif 2; other site 138677002681 motif 3; other site 138677002682 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 138677002683 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 138677002684 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 138677002685 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 138677002686 Ligand Binding Site [chemical binding]; other site 138677002687 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 138677002688 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 138677002689 Walker A motif; other site 138677002690 ATP binding site [chemical binding]; other site 138677002691 Walker B motif; other site 138677002692 arginine finger; other site 138677002693 Peptidase family M41; Region: Peptidase_M41; pfam01434 138677002694 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 138677002695 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 138677002696 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 138677002697 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 138677002698 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 138677002699 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 138677002700 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 138677002701 putative nucleic acid binding region [nucleotide binding]; other site 138677002702 G-X-X-G motif; other site 138677002703 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 138677002704 RNA binding site [nucleotide binding]; other site 138677002705 domain interface; other site 138677002706 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 138677002707 16S/18S rRNA binding site [nucleotide binding]; other site 138677002708 S13e-L30e interaction site [polypeptide binding]; other site 138677002709 25S rRNA binding site [nucleotide binding]; other site 138677002710 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 138677002711 nucleoside/Zn binding site; other site 138677002712 dimer interface [polypeptide binding]; other site 138677002713 catalytic motif [active] 138677002714 Protein of unknown function (DUF720); Region: DUF720; pfam05302 138677002715 Protein of unknown function (DUF720); Region: DUF720; pfam05302 138677002716 Protein of unknown function (DUF720); Region: DUF720; pfam05302 138677002717 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 138677002718 methionine aminopeptidase; Provisional; Region: PRK12318 138677002719 SEC-C motif; Region: SEC-C; pfam02810 138677002720 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 138677002721 active site 138677002722 MarC family integral membrane protein; Region: MarC; cl00919 138677002723 MarC family integral membrane protein; Region: MarC; cl00919 138677002724 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 138677002725 dimer interface [polypeptide binding]; other site 138677002726 conserved gate region; other site 138677002727 putative PBP binding loops; other site 138677002728 ABC-ATPase subunit interface; other site 138677002729 NMT1-like family; Region: NMT1_2; cl15260 138677002730 NMT1/THI5 like; Region: NMT1; pfam09084 138677002731 fumarate hydratase, class II; Region: fumC_II; TIGR00979 138677002732 Class II fumarases; Region: Fumarase_classII; cd01362 138677002733 active site 138677002734 tetramer interface [polypeptide binding]; other site 138677002735 high affinity sulphate transporter 1; Region: sulP; TIGR00815 138677002736 Permease family; Region: Xan_ur_permease; cl00967 138677002737 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 138677002738 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 138677002739 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 138677002740 transmembrane helices; other site 138677002741 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 138677002742 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 138677002743 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 138677002744 active site triad [active] 138677002745 LytB protein; Region: LYTB; cl00507 138677002746 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 138677002747 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; cl15754 138677002748 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 138677002749 Tetratricopeptide repeat; Region: TPR_3; pfam07720 138677002750 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 138677002751 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 138677002752 Int/Topo IB signature motif; other site 138677002753 active site 138677002754 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 138677002755 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 138677002756 active site 138677002757 dimer interface [polypeptide binding]; other site 138677002758 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 138677002759 dimer interface [polypeptide binding]; other site 138677002760 active site 138677002761 UbiA prenyltransferase family; Region: UbiA; cl00337 138677002762 malate dehydrogenase; Provisional; Region: PRK05442 138677002763 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 138677002764 NAD(P) binding site [chemical binding]; other site 138677002765 dimer interface [polypeptide binding]; other site 138677002766 malate binding site [chemical binding]; other site 138677002767 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 138677002768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677002769 Amino acid permease; Region: AA_permease; cl00524 138677002770 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 138677002771 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 138677002772 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 138677002773 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 138677002774 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase protein; Reviewed; Region: aroDE; PRK09310 138677002775 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 138677002776 active site 138677002777 catalytic residue [active] 138677002778 dimer interface [polypeptide binding]; other site 138677002779 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 138677002780 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 138677002781 shikimate binding site; other site 138677002782 NAD(P) binding site [chemical binding]; other site 138677002783 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 138677002784 active site 138677002785 dimer interface [polypeptide binding]; other site 138677002786 metal binding site [ion binding]; metal-binding site 138677002787 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 138677002788 Tetramer interface [polypeptide binding]; other site 138677002789 active site 138677002790 FMN-binding site [chemical binding]; other site 138677002791 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 138677002792 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 138677002793 ADP binding site [chemical binding]; other site 138677002794 magnesium binding site [ion binding]; other site 138677002795 putative shikimate binding site; other site 138677002796 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 138677002797 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 138677002798 hinge; other site 138677002799 active site 138677002800 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 138677002801 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 138677002802 inhibitor-cofactor binding pocket; inhibition site 138677002803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138677002804 catalytic residue [active] 138677002805 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 138677002806 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 138677002807 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 138677002808 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138677002809 catalytic residue [active] 138677002810 biotin synthase; Region: bioB; TIGR00433 138677002811 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 138677002812 FeS/SAM binding site; other site 138677002813 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 138677002814 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 138677002815 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 138677002816 cofactor binding site; other site 138677002817 metal binding site [ion binding]; metal-binding site 138677002818 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 138677002819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677002820 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 138677002821 aspartate-semialdehyde dehydrogenase (non-peptidoglycan organisms); Region: asd_EA; TIGR00978 138677002822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138677002823 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 138677002824 aspartate kinase; Provisional; Region: PRK05925 138677002825 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 138677002826 putative catalytic residues [active] 138677002827 nucleotide binding site [chemical binding]; other site 138677002828 aspartate binding site [chemical binding]; other site 138677002829 dihydrodipicolinate synthase; Region: dapA; TIGR00674 138677002830 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 138677002831 catalytic residue [active] 138677002832 IncA protein; Region: IncA; pfam04156 138677002833 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 138677002834 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 138677002835 catalytic residues [active] 138677002836 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; cl12011 138677002837 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 138677002838 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 138677002839 TPP-binding site; other site 138677002840 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 138677002841 PYR/PP interface [polypeptide binding]; other site 138677002842 dimer interface [polypeptide binding]; other site 138677002843 TPP binding site [chemical binding]; other site 138677002844 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 138677002845 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 138677002846 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 138677002847 generic binding surface II; other site 138677002848 generic binding surface I; other site 138677002849 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 138677002850 substrate binding site [chemical binding]; other site 138677002851 dimer interface [polypeptide binding]; other site 138677002852 catalytic triad [active] 138677002853 Preprotein translocase SecG subunit; Region: SecG; cl09123 138677002854 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 138677002855 active site 138677002856 catalytic residues [active] 138677002857 metal binding site [ion binding]; metal-binding site 138677002858 ribonuclease HIII; Provisional; Region: PRK00996 138677002859 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 138677002860 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 138677002861 RNA/DNA hybrid binding site [nucleotide binding]; other site 138677002862 active site 138677002863 Helix-turn-helix domains; Region: HTH; cl00088 138677002864 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 138677002865 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391