-- dump date 20140619_104737 -- class Genbank::misc_feature -- table misc_feature_note -- id note 262727000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 262727000002 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 262727000003 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 262727000004 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 262727000005 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 262727000006 S17 interaction site [polypeptide binding]; other site 262727000007 S8 interaction site; other site 262727000008 16S rRNA interaction site [nucleotide binding]; other site 262727000009 streptomycin interaction site [chemical binding]; other site 262727000010 23S rRNA interaction site [nucleotide binding]; other site 262727000011 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 262727000012 30S ribosomal protein S7; Validated; Region: PRK05302 262727000013 elongation factor G; Reviewed; Region: PRK00007 262727000014 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 262727000015 G1 box; other site 262727000016 putative GEF interaction site [polypeptide binding]; other site 262727000017 GTP/Mg2+ binding site [chemical binding]; other site 262727000018 Switch I region; other site 262727000019 G2 box; other site 262727000020 G3 box; other site 262727000021 Switch II region; other site 262727000022 G4 box; other site 262727000023 G5 box; other site 262727000024 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 262727000025 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 262727000026 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 262727000027 elongation factor Tu; Reviewed; Region: PRK00049 262727000028 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 262727000029 G1 box; other site 262727000030 GEF interaction site [polypeptide binding]; other site 262727000031 GTP/Mg2+ binding site [chemical binding]; other site 262727000032 Switch I region; other site 262727000033 G2 box; other site 262727000034 G3 box; other site 262727000035 Switch II region; other site 262727000036 G4 box; other site 262727000037 G5 box; other site 262727000038 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 262727000039 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 262727000040 Antibiotic Binding Site [chemical binding]; other site 262727000041 Uncharacterized conserved protein involved in oxidation of intracellular sulfur [Inorganic ion transport and metabolism]; Region: DsrH; COG2168 262727000042 sulfur relay protein TusC; Validated; Region: PRK00211 262727000043 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 262727000044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 262727000045 YheO-like PAS domain; Region: PAS_6; pfam08348 262727000046 HTH domain; Region: HTH_22; pfam13309 262727000047 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 262727000048 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 262727000049 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 262727000050 hypothetical protein; Provisional; Region: PRK02119 262727000051 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 262727000052 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 262727000053 catalytic triad [active] 262727000054 dimer interface [polypeptide binding]; other site 262727000055 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 262727000056 GSH binding site [chemical binding]; other site 262727000057 catalytic residues [active] 262727000058 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 262727000059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 262727000060 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 262727000061 dimerization interface [polypeptide binding]; other site 262727000062 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 262727000063 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 262727000064 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 262727000065 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 262727000066 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 262727000067 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 262727000068 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 262727000069 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 262727000070 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 262727000071 RNA binding site [nucleotide binding]; other site 262727000072 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 262727000073 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 262727000074 ATP binding site [chemical binding]; other site 262727000075 Mg2+ binding site [ion binding]; other site 262727000076 G-X-G motif; other site 262727000077 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 262727000078 anchoring element; other site 262727000079 dimer interface [polypeptide binding]; other site 262727000080 ATP binding site [chemical binding]; other site 262727000081 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 262727000082 active site 262727000083 putative metal-binding site [ion binding]; other site 262727000084 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 262727000085 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 262727000086 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 262727000087 substrate binding site [chemical binding]; other site 262727000088 hexamer interface [polypeptide binding]; other site 262727000089 metal binding site [ion binding]; metal-binding site 262727000090 phosphoglycolate phosphatase; Provisional; Region: PRK13222 262727000091 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 262727000092 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 262727000093 motif II; other site 262727000094 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 262727000095 dimer interface [polypeptide binding]; other site 262727000096 active site 262727000097 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 262727000098 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 262727000099 dimerization interface [polypeptide binding]; other site 262727000100 putative DNA binding site [nucleotide binding]; other site 262727000101 putative Zn2+ binding site [ion binding]; other site 262727000102 AsnC family; Region: AsnC_trans_reg; pfam01037 262727000103 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 262727000104 RNA binding surface [nucleotide binding]; other site 262727000105 Predicted membrane protein [Function unknown]; Region: COG1297 262727000106 putative oligopeptide transporter, OPT family; Region: TIGR00733 262727000107 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 262727000108 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 262727000109 active site 262727000110 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 262727000111 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 262727000112 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 262727000113 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 262727000114 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 262727000115 putative active site [active] 262727000116 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 262727000117 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 262727000118 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 262727000119 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 262727000120 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 262727000121 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 262727000122 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 262727000123 active site 262727000124 metal binding site [ion binding]; metal-binding site 262727000125 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 262727000126 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 262727000127 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 262727000128 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 262727000129 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 262727000130 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 262727000131 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 262727000132 rRNA binding site [nucleotide binding]; other site 262727000133 predicted 30S ribosome binding site; other site 262727000134 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 262727000135 primosomal replication protein N; Provisional; Region: PRK02801 262727000136 generic binding surface I; other site 262727000137 generic binding surface II; other site 262727000138 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 262727000139 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 262727000140 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 262727000141 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 262727000142 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 262727000143 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 262727000144 ring oligomerisation interface [polypeptide binding]; other site 262727000145 ATP/Mg binding site [chemical binding]; other site 262727000146 stacking interactions; other site 262727000147 hinge regions; other site 262727000148 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 262727000149 oligomerisation interface [polypeptide binding]; other site 262727000150 mobile loop; other site 262727000151 roof hairpin; other site 262727000152 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 262727000153 alpha-gamma subunit interface [polypeptide binding]; other site 262727000154 beta-gamma subunit interface [polypeptide binding]; other site 262727000155 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 262727000156 gamma-beta subunit interface [polypeptide binding]; other site 262727000157 alpha-beta subunit interface [polypeptide binding]; other site 262727000158 urease subunit alpha; Reviewed; Region: ureC; PRK13207 262727000159 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 262727000160 subunit interactions [polypeptide binding]; other site 262727000161 active site 262727000162 flap region; other site 262727000163 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 262727000164 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 262727000165 dimer interface [polypeptide binding]; other site 262727000166 catalytic residues [active] 262727000167 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 262727000168 UreF; Region: UreF; pfam01730 262727000169 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 262727000170 G1 box; other site 262727000171 GTP/Mg2+ binding site [chemical binding]; other site 262727000172 G2 box; other site 262727000173 Switch I region; other site 262727000174 G3 box; other site 262727000175 Switch II region; other site 262727000176 G4 box; other site 262727000177 G5 box; other site 262727000178 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 262727000179 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 262727000180 Aspartase; Region: Aspartase; cd01357 262727000181 active sites [active] 262727000182 tetramer interface [polypeptide binding]; other site 262727000183 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 262727000184 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 262727000185 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 262727000186 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 262727000187 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262727000188 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 262727000189 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 262727000190 DNA binding residues [nucleotide binding] 262727000191 DNA primase; Validated; Region: dnaG; PRK05667 262727000192 CHC2 zinc finger; Region: zf-CHC2; pfam01807 262727000193 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262727000194 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 262727000195 active site 262727000196 metal binding site [ion binding]; metal-binding site 262727000197 interdomain interaction site; other site 262727000198 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 262727000199 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 262727000200 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 262727000201 UGMP family protein; Validated; Region: PRK09604 262727000202 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 262727000203 thymidine kinase; Provisional; Region: PRK04296 262727000204 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262727000205 ATP binding site [chemical binding]; other site 262727000206 Walker A motif; other site 262727000207 Walker B motif; other site 262727000208 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 262727000209 aromatic amino acid transport protein; Region: araaP; TIGR00837 262727000210 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 262727000211 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 262727000212 B1 nucleotide binding pocket [chemical binding]; other site 262727000213 B2 nucleotide binding pocket [chemical binding]; other site 262727000214 CAS motifs; other site 262727000215 active site 262727000216 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 262727000217 Phosphoglycerate kinase; Region: PGK; pfam00162 262727000218 substrate binding site [chemical binding]; other site 262727000219 hinge regions; other site 262727000220 ADP binding site [chemical binding]; other site 262727000221 catalytic site [active] 262727000222 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 262727000223 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 262727000224 active site 262727000225 intersubunit interface [polypeptide binding]; other site 262727000226 zinc binding site [ion binding]; other site 262727000227 Na+ binding site [ion binding]; other site 262727000228 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 262727000229 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 262727000230 putative active site [active] 262727000231 Predicted membrane protein [Function unknown]; Region: COG2364 262727000232 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 262727000233 Pyruvate formate lyase; Region: PFL; pfam02901 262727000234 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 262727000235 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 262727000236 FeS/SAM binding site; other site 262727000237 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 262727000238 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 262727000239 Nucleoside recognition; Region: Gate; pfam07670 262727000240 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 262727000241 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 262727000242 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 262727000243 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 262727000244 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 262727000245 23S rRNA interface [nucleotide binding]; other site 262727000246 L7/L12 interface [polypeptide binding]; other site 262727000247 putative thiostrepton binding site; other site 262727000248 L25 interface [polypeptide binding]; other site 262727000249 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 262727000250 mRNA/rRNA interface [nucleotide binding]; other site 262727000251 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 262727000252 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 262727000253 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 262727000254 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 262727000255 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 262727000256 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 262727000257 RPB1 interaction site [polypeptide binding]; other site 262727000258 RPB11 interaction site [polypeptide binding]; other site 262727000259 RPB10 interaction site [polypeptide binding]; other site 262727000260 RPB3 interaction site [polypeptide binding]; other site 262727000261 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 262727000262 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 262727000263 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 262727000264 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 262727000265 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 262727000266 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 262727000267 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 262727000268 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 262727000269 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 262727000270 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 262727000271 DNA binding site [nucleotide binding] 262727000272 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 262727000273 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 262727000274 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 262727000275 gating phenylalanine in ion channel; other site 262727000276 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 262727000277 homodimer interaction site [polypeptide binding]; other site 262727000278 cofactor binding site; other site 262727000279 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 262727000280 UbiA prenyltransferase family; Region: UbiA; pfam01040 262727000281 regulator of ribonuclease activity A; Region: RraA_entero; TIGR02998 262727000282 hypothetical protein; Provisional; Region: PRK05208 262727000283 transcriptional repressor RbsR; Provisional; Region: PRK10423 262727000284 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 262727000285 DNA binding site [nucleotide binding] 262727000286 domain linker motif; other site 262727000287 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 262727000288 dimerization interface [polypeptide binding]; other site 262727000289 ligand binding site [chemical binding]; other site 262727000290 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 262727000291 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 262727000292 substrate binding site [chemical binding]; other site 262727000293 dimer interface [polypeptide binding]; other site 262727000294 ATP binding site [chemical binding]; other site 262727000295 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 262727000296 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 262727000297 ligand binding site [chemical binding]; other site 262727000298 dimerization interface [polypeptide binding]; other site 262727000299 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 262727000300 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 262727000301 TM-ABC transporter signature motif; other site 262727000302 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 262727000303 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 262727000304 Walker A/P-loop; other site 262727000305 ATP binding site [chemical binding]; other site 262727000306 Q-loop/lid; other site 262727000307 ABC transporter signature motif; other site 262727000308 Walker B; other site 262727000309 D-loop; other site 262727000310 H-loop/switch region; other site 262727000311 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 262727000312 D-ribose pyranase; Provisional; Region: PRK11797 262727000313 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 262727000314 RmuC family; Region: RmuC; pfam02646 262727000315 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 262727000316 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 262727000317 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 262727000318 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 262727000319 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 262727000320 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 262727000321 Walker A motif; other site 262727000322 ATP binding site [chemical binding]; other site 262727000323 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 262727000324 Walker B motif; other site 262727000325 arginine finger; other site 262727000326 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 262727000327 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 262727000328 HslU subunit interaction site [polypeptide binding]; other site 262727000329 acid phosphatase/phosphotransferase; Provisional; Region: aphA; PRK11009 262727000330 S-ribosylhomocysteinase; Provisional; Region: PRK02260 262727000331 Predicted membrane protein [Function unknown]; Region: COG1238 262727000332 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 262727000333 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 262727000334 motif II; other site 262727000335 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 262727000336 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 262727000337 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 262727000338 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 262727000339 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 262727000340 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 262727000341 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 262727000342 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 262727000343 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 262727000344 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 262727000345 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 262727000346 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 262727000347 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 262727000348 beta subunit interaction interface [polypeptide binding]; other site 262727000349 Walker A motif; other site 262727000350 ATP binding site [chemical binding]; other site 262727000351 Walker B motif; other site 262727000352 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 262727000353 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 262727000354 core domain interface [polypeptide binding]; other site 262727000355 delta subunit interface [polypeptide binding]; other site 262727000356 epsilon subunit interface [polypeptide binding]; other site 262727000357 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 262727000358 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 262727000359 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 262727000360 alpha subunit interaction interface [polypeptide binding]; other site 262727000361 Walker A motif; other site 262727000362 ATP binding site [chemical binding]; other site 262727000363 Walker B motif; other site 262727000364 inhibitor binding site; inhibition site 262727000365 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 262727000366 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 262727000367 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 262727000368 gamma subunit interface [polypeptide binding]; other site 262727000369 epsilon subunit interface [polypeptide binding]; other site 262727000370 LBP interface [polypeptide binding]; other site 262727000371 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 262727000372 aromatic amino acid transport protein; Region: araaP; TIGR00837 262727000373 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 262727000374 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 262727000375 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 262727000376 metal binding site [ion binding]; metal-binding site 262727000377 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 262727000378 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 262727000379 substrate binding site [chemical binding]; other site 262727000380 glutamase interaction surface [polypeptide binding]; other site 262727000381 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 262727000382 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 262727000383 catalytic residues [active] 262727000384 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 262727000385 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 262727000386 putative active site [active] 262727000387 oxyanion strand; other site 262727000388 catalytic triad [active] 262727000389 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 262727000390 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 262727000391 active site 262727000392 motif I; other site 262727000393 motif II; other site 262727000394 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 262727000395 putative active site pocket [active] 262727000396 4-fold oligomerization interface [polypeptide binding]; other site 262727000397 metal binding residues [ion binding]; metal-binding site 262727000398 3-fold/trimer interface [polypeptide binding]; other site 262727000399 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 262727000400 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 262727000401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727000402 homodimer interface [polypeptide binding]; other site 262727000403 catalytic residue [active] 262727000404 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 262727000405 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 262727000406 NAD binding site [chemical binding]; other site 262727000407 dimerization interface [polypeptide binding]; other site 262727000408 product binding site; other site 262727000409 substrate binding site [chemical binding]; other site 262727000410 zinc binding site [ion binding]; other site 262727000411 catalytic residues [active] 262727000412 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 262727000413 ATP phosphoribosyltransferase; Region: HisG; pfam01634 262727000414 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 262727000415 hypothetical protein; Provisional; Region: PRK11820 262727000416 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 262727000417 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 262727000418 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 262727000419 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 262727000420 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 262727000421 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 262727000422 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 262727000423 ligand binding site [chemical binding]; other site 262727000424 NAD binding site [chemical binding]; other site 262727000425 tetramer interface [polypeptide binding]; other site 262727000426 catalytic site [active] 262727000427 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 262727000428 L-serine binding site [chemical binding]; other site 262727000429 ACT domain interface; other site 262727000430 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 262727000431 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262727000432 active site 262727000433 dimer interface [polypeptide binding]; other site 262727000434 HemN family oxidoreductase; Provisional; Region: PRK05660 262727000435 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 262727000436 FeS/SAM binding site; other site 262727000437 HemN C-terminal domain; Region: HemN_C; pfam06969 262727000438 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 262727000439 Found in ATP-dependent protease La (LON); Region: LON; smart00464 262727000440 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 262727000441 Walker A motif; other site 262727000442 ATP binding site [chemical binding]; other site 262727000443 Walker B motif; other site 262727000444 arginine finger; other site 262727000445 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 262727000446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 262727000447 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 262727000448 homodimer interface [polypeptide binding]; other site 262727000449 MazG family protein; Region: mazG; TIGR00444 262727000450 metal binding site [ion binding]; metal-binding site 262727000451 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 262727000452 homodimer interface [polypeptide binding]; other site 262727000453 active site 262727000454 putative chemical substrate binding site [chemical binding]; other site 262727000455 metal binding site [ion binding]; metal-binding site 262727000456 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 262727000457 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 262727000458 active site 262727000459 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 262727000460 SurA N-terminal domain; Region: SurA_N; pfam09312 262727000461 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 262727000462 conserved hypothetical protein, YceG family; Region: TIGR00247 262727000463 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 262727000464 dimerization interface [polypeptide binding]; other site 262727000465 thymidylate kinase; Validated; Region: tmk; PRK00698 262727000466 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 262727000467 TMP-binding site; other site 262727000468 ATP-binding site [chemical binding]; other site 262727000469 DNA polymerase III subunit delta'; Validated; Region: PRK06871 262727000470 DNA polymerase III subunit delta'; Validated; Region: PRK08485 262727000471 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 262727000472 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 262727000473 active site 262727000474 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 262727000475 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 262727000476 Domain of unknown function DUF21; Region: DUF21; pfam01595 262727000477 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 262727000478 Transporter associated domain; Region: CorC_HlyC; smart01091 262727000479 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 262727000480 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 262727000481 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 262727000482 active site 262727000483 phosphorylation site [posttranslational modification] 262727000484 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 262727000485 dimerization domain swap beta strand [polypeptide binding]; other site 262727000486 regulatory protein interface [polypeptide binding]; other site 262727000487 active site 262727000488 regulatory phosphorylation site [posttranslational modification]; other site 262727000489 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 262727000490 dimerization domain swap beta strand [polypeptide binding]; other site 262727000491 regulatory protein interface [polypeptide binding]; other site 262727000492 active site 262727000493 regulatory phosphorylation site [posttranslational modification]; other site 262727000494 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 262727000495 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 262727000496 putative substrate binding site [chemical binding]; other site 262727000497 putative ATP binding site [chemical binding]; other site 262727000498 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 262727000499 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 262727000500 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 262727000501 active site 262727000502 P-loop; other site 262727000503 phosphorylation site [posttranslational modification] 262727000504 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 262727000505 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 262727000506 DNA topoisomerase III; Provisional; Region: PRK07726 262727000507 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 262727000508 active site 262727000509 putative interdomain interaction site [polypeptide binding]; other site 262727000510 putative metal-binding site [ion binding]; other site 262727000511 putative nucleotide binding site [chemical binding]; other site 262727000512 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 262727000513 domain I; other site 262727000514 DNA binding groove [nucleotide binding] 262727000515 phosphate binding site [ion binding]; other site 262727000516 domain II; other site 262727000517 domain III; other site 262727000518 nucleotide binding site [chemical binding]; other site 262727000519 catalytic site [active] 262727000520 domain IV; other site 262727000521 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 262727000522 RecR protein; Region: RecR; pfam02132 262727000523 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 262727000524 putative active site [active] 262727000525 putative metal-binding site [ion binding]; other site 262727000526 tetramer interface [polypeptide binding]; other site 262727000527 hypothetical protein; Validated; Region: PRK00153 262727000528 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 262727000529 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 262727000530 Transglycosylase; Region: Transgly; pfam00912 262727000531 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 262727000532 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 262727000533 Pilus assembly protein, PilP; Region: PilP; pfam04351 262727000534 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 262727000535 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 262727000536 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 262727000537 comF family protein; Region: comF; TIGR00201 262727000538 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 262727000539 active site 262727000540 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 262727000541 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 262727000542 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 262727000543 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 262727000544 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 262727000545 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 262727000546 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 262727000547 putative NADH binding site [chemical binding]; other site 262727000548 putative active site [active] 262727000549 nudix motif; other site 262727000550 putative metal binding site [ion binding]; other site 262727000551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 262727000552 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 262727000553 IHF dimer interface [polypeptide binding]; other site 262727000554 IHF - DNA interface [nucleotide binding]; other site 262727000555 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 262727000556 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 262727000557 glutaminase active site [active] 262727000558 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 262727000559 dimer interface [polypeptide binding]; other site 262727000560 active site 262727000561 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 262727000562 dimer interface [polypeptide binding]; other site 262727000563 active site 262727000564 disulfide bond formation protein B; Provisional; Region: PRK01749 262727000565 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 262727000566 fatty acid metabolism transcriptional regulator FadR; Region: fadR_gamma; TIGR02812 262727000567 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 262727000568 DNA-binding site [nucleotide binding]; DNA binding site 262727000569 FadR C-terminal domain; Region: FadR_C; pfam07840 262727000570 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 262727000571 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 262727000572 domain interface [polypeptide binding]; other site 262727000573 putative active site [active] 262727000574 catalytic site [active] 262727000575 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 262727000576 domain interface [polypeptide binding]; other site 262727000577 putative active site [active] 262727000578 catalytic site [active] 262727000579 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 262727000580 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 262727000581 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 262727000582 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 262727000583 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 262727000584 S-adenosylmethionine binding site [chemical binding]; other site 262727000585 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 262727000586 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 262727000587 ATP binding site [chemical binding]; other site 262727000588 Mg++ binding site [ion binding]; other site 262727000589 motif III; other site 262727000590 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 262727000591 nucleotide binding region [chemical binding]; other site 262727000592 ATP-binding site [chemical binding]; other site 262727000593 putative protease; Provisional; Region: PRK15452 262727000594 Peptidase family U32; Region: Peptidase_U32; pfam01136 262727000595 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 262727000596 metabolite-proton symporter; Region: 2A0106; TIGR00883 262727000597 putative substrate translocation pore; other site 262727000598 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 262727000599 thiamine phosphate binding site [chemical binding]; other site 262727000600 active site 262727000601 pyrophosphate binding site [ion binding]; other site 262727000602 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 262727000603 dimer interface [polypeptide binding]; other site 262727000604 substrate binding site [chemical binding]; other site 262727000605 ATP binding site [chemical binding]; other site 262727000606 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 262727000607 substrate binding site [chemical binding]; other site 262727000608 multimerization interface [polypeptide binding]; other site 262727000609 ATP binding site [chemical binding]; other site 262727000610 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 262727000611 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 262727000612 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 262727000613 homodimer interface [polypeptide binding]; other site 262727000614 oligonucleotide binding site [chemical binding]; other site 262727000615 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 262727000616 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 262727000617 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 262727000618 RNA binding surface [nucleotide binding]; other site 262727000619 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 262727000620 active site 262727000621 bacterial Hfq-like; Region: Hfq; cd01716 262727000622 hexamer interface [polypeptide binding]; other site 262727000623 Sm1 motif; other site 262727000624 RNA binding site [nucleotide binding]; other site 262727000625 Sm2 motif; other site 262727000626 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 262727000627 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 262727000628 Walker A motif; other site 262727000629 ATP binding site [chemical binding]; other site 262727000630 Walker B motif; other site 262727000631 arginine finger; other site 262727000632 putative peptidase; Provisional; Region: PRK11649 262727000633 Peptidase family M23; Region: Peptidase_M23; pfam01551 262727000634 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 262727000635 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727000636 Walker A/P-loop; other site 262727000637 ATP binding site [chemical binding]; other site 262727000638 Q-loop/lid; other site 262727000639 ABC transporter signature motif; other site 262727000640 Walker B; other site 262727000641 D-loop; other site 262727000642 H-loop/switch region; other site 262727000643 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 262727000644 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 262727000645 ABC-ATPase subunit interface; other site 262727000646 dimer interface [polypeptide binding]; other site 262727000647 putative PBP binding regions; other site 262727000648 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 262727000649 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 262727000650 pyridoxamine kinase; Validated; Region: PRK05756 262727000651 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 262727000652 dimer interface [polypeptide binding]; other site 262727000653 pyridoxal binding site [chemical binding]; other site 262727000654 ATP binding site [chemical binding]; other site 262727000655 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 262727000656 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 262727000657 Ligand Binding Site [chemical binding]; other site 262727000658 TilS substrate binding domain; Region: TilS; pfam09179 262727000659 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 262727000660 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 262727000661 putative DNA-binding cleft [nucleotide binding]; other site 262727000662 putative DNA clevage site; other site 262727000663 molecular lever; other site 262727000664 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 262727000665 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 262727000666 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 262727000667 DNA binding site [nucleotide binding] 262727000668 active site 262727000669 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 262727000670 conserved hypothetical protein; Region: TIGR00743 262727000671 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 262727000672 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 262727000673 active site 262727000674 metal binding site [ion binding]; metal-binding site 262727000675 hexamer interface [polypeptide binding]; other site 262727000676 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 262727000677 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 262727000678 dimer interface [polypeptide binding]; other site 262727000679 ADP-ribose binding site [chemical binding]; other site 262727000680 active site 262727000681 nudix motif; other site 262727000682 metal binding site [ion binding]; metal-binding site 262727000683 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 262727000684 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 262727000685 generic binding surface II; other site 262727000686 generic binding surface I; other site 262727000687 Uncharacterized conserved protein [Function unknown]; Region: COG2850 262727000688 Cupin domain; Region: Cupin_2; cl17218 262727000689 hypothetical protein; Validated; Region: PRK01777 262727000690 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 262727000691 putative active site [active] 262727000692 catalytic residue [active] 262727000693 GTP-binding protein YchF; Reviewed; Region: PRK09601 262727000694 YchF GTPase; Region: YchF; cd01900 262727000695 G1 box; other site 262727000696 GTP/Mg2+ binding site [chemical binding]; other site 262727000697 Switch I region; other site 262727000698 G2 box; other site 262727000699 Switch II region; other site 262727000700 G3 box; other site 262727000701 G4 box; other site 262727000702 G5 box; other site 262727000703 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 262727000704 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 262727000705 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 262727000706 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 262727000707 catalytic site [active] 262727000708 putative active site [active] 262727000709 putative substrate binding site [chemical binding]; other site 262727000710 Helicase and RNase D C-terminal; Region: HRDC; smart00341 262727000711 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 262727000712 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 262727000713 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 262727000714 acyl-activating enzyme (AAE) consensus motif; other site 262727000715 putative AMP binding site [chemical binding]; other site 262727000716 putative active site [active] 262727000717 putative CoA binding site [chemical binding]; other site 262727000718 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 262727000719 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 262727000720 Glycoprotease family; Region: Peptidase_M22; pfam00814 262727000721 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 262727000722 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 262727000723 DEAD_2; Region: DEAD_2; pfam06733 262727000724 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 262727000725 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 262727000726 active site 262727000727 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 262727000728 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 262727000729 colicin uptake protein TolR; Provisional; Region: PRK11024 262727000730 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 262727000731 TolA C-terminal; Region: TolA; pfam06519 262727000732 translocation protein TolB; Provisional; Region: tolB; PRK01742 262727000733 TolB amino-terminal domain; Region: TolB_N; pfam04052 262727000734 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 262727000735 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 262727000736 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 262727000737 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 262727000738 ligand binding site [chemical binding]; other site 262727000739 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 262727000740 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 262727000741 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 262727000742 Rrf2 family protein; Region: rrf2_super; TIGR00738 262727000743 cysteine desulfurase; Provisional; Region: PRK14012 262727000744 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 262727000745 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 262727000746 catalytic residue [active] 262727000747 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 262727000748 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 262727000749 trimerization site [polypeptide binding]; other site 262727000750 active site 262727000751 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 262727000752 co-chaperone HscB; Provisional; Region: hscB; PRK01773 262727000753 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 262727000754 HSP70 interaction site [polypeptide binding]; other site 262727000755 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 262727000756 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 262727000757 chaperone protein HscA; Provisional; Region: hscA; PRK05183 262727000758 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 262727000759 nucleotide binding site [chemical binding]; other site 262727000760 putative NEF/HSP70 interaction site [polypeptide binding]; other site 262727000761 SBD interface [polypeptide binding]; other site 262727000762 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 262727000763 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 262727000764 catalytic loop [active] 262727000765 iron binding site [ion binding]; other site 262727000766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2975 262727000767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 262727000768 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 262727000769 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 262727000770 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 262727000771 dimer interface [polypeptide binding]; other site 262727000772 motif 1; other site 262727000773 active site 262727000774 motif 2; other site 262727000775 motif 3; other site 262727000776 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 262727000777 anticodon binding site; other site 262727000778 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 262727000779 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 262727000780 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 262727000781 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 262727000782 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 262727000783 non-specific DNA binding site [nucleotide binding]; other site 262727000784 salt bridge; other site 262727000785 sequence-specific DNA binding site [nucleotide binding]; other site 262727000786 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 262727000787 TPR repeat; Region: TPR_11; pfam13414 262727000788 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 262727000789 TPR motif; other site 262727000790 binding surface 262727000791 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 262727000792 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 262727000793 FeS/SAM binding site; other site 262727000794 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 262727000795 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 262727000796 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 262727000797 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 262727000798 metal binding site [ion binding]; metal-binding site 262727000799 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 262727000800 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 262727000801 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 262727000802 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 262727000803 ABC-ATPase subunit interface; other site 262727000804 dimer interface [polypeptide binding]; other site 262727000805 putative PBP binding regions; other site 262727000806 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 262727000807 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 262727000808 ABC-ATPase subunit interface; other site 262727000809 dimer interface [polypeptide binding]; other site 262727000810 putative PBP binding regions; other site 262727000811 Putative transcription activator [Transcription]; Region: TenA; COG0819 262727000812 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; cl17432 262727000813 NMT1/THI5 like; Region: NMT1; pfam09084 262727000814 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 262727000815 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 262727000816 dimer interface [polypeptide binding]; other site 262727000817 conserved gate region; other site 262727000818 putative PBP binding loops; other site 262727000819 ABC-ATPase subunit interface; other site 262727000820 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 262727000821 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727000822 Walker A/P-loop; other site 262727000823 ATP binding site [chemical binding]; other site 262727000824 Q-loop/lid; other site 262727000825 ABC transporter signature motif; other site 262727000826 Walker B; other site 262727000827 D-loop; other site 262727000828 H-loop/switch region; other site 262727000829 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 262727000830 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 262727000831 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 262727000832 NAD binding site [chemical binding]; other site 262727000833 homodimer interface [polypeptide binding]; other site 262727000834 active site 262727000835 substrate binding site [chemical binding]; other site 262727000836 muropeptide transporter; Reviewed; Region: ampG; PRK11902 262727000837 AmpG-like permease; Region: 2A0125; TIGR00901 262727000838 adenylate kinase; Reviewed; Region: adk; PRK00279 262727000839 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 262727000840 AMP-binding site [chemical binding]; other site 262727000841 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 262727000842 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 262727000843 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 262727000844 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 262727000845 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 262727000846 4Fe-4S binding domain; Region: Fer4_5; pfam12801 262727000847 4Fe-4S binding domain; Region: Fer4_6; pfam12837 262727000848 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 262727000849 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 262727000850 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 262727000851 [4Fe-4S] binding site [ion binding]; other site 262727000852 molybdopterin cofactor binding site; other site 262727000853 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 262727000854 molybdopterin cofactor binding site; other site 262727000855 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 262727000856 ferredoxin-type protein NapF; Region: napF; TIGR00402 262727000857 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 262727000858 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 262727000859 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 262727000860 4Fe-4S binding domain; Region: Fer4; pfam00037 262727000861 hypothetical protein; Provisional; Region: PRK11702 262727000862 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 262727000863 primosome assembly protein PriA; Validated; Region: PRK05580 262727000864 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 262727000865 ATP binding site [chemical binding]; other site 262727000866 putative Mg++ binding site [ion binding]; other site 262727000867 helicase superfamily c-terminal domain; Region: HELICc; smart00490 262727000868 nucleotide binding region [chemical binding]; other site 262727000869 ATP-binding site [chemical binding]; other site 262727000870 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 262727000871 Domain of unknown function DUF20; Region: UPF0118; pfam01594 262727000872 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 262727000873 Nitrogen regulatory protein P-II; Region: P-II; smart00938 262727000874 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 262727000875 MPT binding site; other site 262727000876 trimer interface [polypeptide binding]; other site 262727000877 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 262727000878 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 262727000879 HD domain; Region: HD_4; pfam13328 262727000880 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 262727000881 synthetase active site [active] 262727000882 NTP binding site [chemical binding]; other site 262727000883 metal binding site [ion binding]; metal-binding site 262727000884 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 262727000885 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 262727000886 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 262727000887 active site 262727000888 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 262727000889 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 262727000890 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 262727000891 S-adenosylmethionine binding site [chemical binding]; other site 262727000892 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 262727000893 TRAM domain; Region: TRAM; pfam01938 262727000894 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 262727000895 S-adenosylmethionine binding site [chemical binding]; other site 262727000896 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 262727000897 Recombination protein O N terminal; Region: RecO_N; pfam11967 262727000898 Recombination protein O C terminal; Region: RecO_C; pfam02565 262727000899 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 262727000900 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 262727000901 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 262727000902 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 262727000903 FeS/SAM binding site; other site 262727000904 elongation factor P; Validated; Region: PRK00529 262727000905 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 262727000906 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 262727000907 RNA binding site [nucleotide binding]; other site 262727000908 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 262727000909 RNA binding site [nucleotide binding]; other site 262727000910 Primosomal replication protein N'' [DNA replication, recombination, and repair]; Region: PriC; COG3923 262727000911 Predicted permease [General function prediction only]; Region: COG2056 262727000912 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 262727000913 ribonuclease T; Provisional; Region: PRK05168 262727000914 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 262727000915 active site 262727000916 catalytic site [active] 262727000917 substrate binding site [chemical binding]; other site 262727000918 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 262727000919 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 262727000920 dimer interface [polypeptide binding]; other site 262727000921 active site 262727000922 metal binding site [ion binding]; metal-binding site 262727000923 glutathione binding site [chemical binding]; other site 262727000924 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 262727000925 oligomeric interface; other site 262727000926 putative active site [active] 262727000927 homodimer interface [polypeptide binding]; other site 262727000928 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 262727000929 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 262727000930 S-adenosylmethionine binding site [chemical binding]; other site 262727000931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 262727000932 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 262727000933 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 262727000934 dimer interface [polypeptide binding]; other site 262727000935 anticodon binding site; other site 262727000936 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 262727000937 homodimer interface [polypeptide binding]; other site 262727000938 motif 1; other site 262727000939 active site 262727000940 motif 2; other site 262727000941 GAD domain; Region: GAD; pfam02938 262727000942 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 262727000943 active site 262727000944 motif 3; other site 262727000945 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 262727000946 nudix motif; other site 262727000947 hypothetical protein; Validated; Region: PRK00110 262727000948 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 262727000949 active site 262727000950 putative DNA-binding cleft [nucleotide binding]; other site 262727000951 dimer interface [polypeptide binding]; other site 262727000952 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 262727000953 RuvA N terminal domain; Region: RuvA_N; pfam01330 262727000954 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 262727000955 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 262727000956 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 262727000957 Walker A motif; other site 262727000958 ATP binding site [chemical binding]; other site 262727000959 Walker B motif; other site 262727000960 arginine finger; other site 262727000961 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 262727000962 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 262727000963 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 262727000964 active site 262727000965 Int/Topo IB signature motif; other site 262727000966 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 262727000967 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 262727000968 putative substrate translocation pore; other site 262727000969 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 262727000970 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 262727000971 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 262727000972 RNAse H-fold protein YqgF; Region: RNAse_H_YqgF; TIGR00250 262727000973 Putative transcriptional regulator [Transcription]; Region: COG1678 262727000974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 262727000975 RNA methyltransferase, RsmE family; Region: TIGR00046 262727000976 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 262727000977 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 262727000978 putative active site [active] 262727000979 catalytic triad [active] 262727000980 putative dimer interface [polypeptide binding]; other site 262727000981 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 262727000982 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 262727000983 Transporter associated domain; Region: CorC_HlyC; smart01091 262727000984 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 262727000985 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 262727000986 amidase catalytic site [active] 262727000987 Zn binding residues [ion binding]; other site 262727000988 substrate binding site [chemical binding]; other site 262727000989 putative major pilin subunit; Provisional; Region: PRK10574 262727000990 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 262727000991 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 262727000992 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262727000993 Walker A motif; other site 262727000994 ATP binding site [chemical binding]; other site 262727000995 Walker B motif; other site 262727000996 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 262727000997 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 262727000998 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 262727000999 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 262727001000 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 262727001001 transcription termination factor Rho; Provisional; Region: rho; PRK09376 262727001002 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 262727001003 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 262727001004 RNA binding site [nucleotide binding]; other site 262727001005 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 262727001006 multimer interface [polypeptide binding]; other site 262727001007 Walker A motif; other site 262727001008 ATP binding site [chemical binding]; other site 262727001009 Walker B motif; other site 262727001010 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 262727001011 dimerization interface [polypeptide binding]; other site 262727001012 DNA binding site [nucleotide binding] 262727001013 corepressor binding sites; other site 262727001014 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 262727001015 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 262727001016 DNA binding residues [nucleotide binding] 262727001017 dimer interface [polypeptide binding]; other site 262727001018 copper binding site [ion binding]; other site 262727001019 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 262727001020 metal-binding site [ion binding] 262727001021 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 262727001022 metal-binding site [ion binding] 262727001023 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 262727001024 metal-binding site [ion binding] 262727001025 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 262727001026 metal-binding site [ion binding] 262727001027 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 262727001028 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 262727001029 metal-binding site [ion binding] 262727001030 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 262727001031 Soluble P-type ATPase [General function prediction only]; Region: COG4087 262727001032 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 262727001033 serine transporter; Region: stp; TIGR00814 262727001034 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 262727001035 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 262727001036 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 262727001037 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 262727001038 aromatic amino acid transport protein; Region: araaP; TIGR00837 262727001039 aminotransferase AlaT; Validated; Region: PRK09265 262727001040 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 262727001041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727001042 homodimer interface [polypeptide binding]; other site 262727001043 catalytic residue [active] 262727001044 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 262727001045 isochorismate synthases; Region: isochor_syn; TIGR00543 262727001046 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 262727001047 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 262727001048 dimer interface [polypeptide binding]; other site 262727001049 tetramer interface [polypeptide binding]; other site 262727001050 PYR/PP interface [polypeptide binding]; other site 262727001051 TPP binding site [chemical binding]; other site 262727001052 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 262727001053 TPP-binding site; other site 262727001054 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 262727001055 metabolite-proton symporter; Region: 2A0106; TIGR00883 262727001056 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 262727001057 putative substrate translocation pore; other site 262727001058 uridine phosphorylase; Provisional; Region: PRK11178 262727001059 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 262727001060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 262727001061 MOSC domain; Region: MOSC; pfam03473 262727001062 3-alpha domain; Region: 3-alpha; pfam03475 262727001063 hypothetical protein; Provisional; Region: PRK01752 262727001064 SEC-C motif; Region: SEC-C; pfam02810 262727001065 SEC-C motif; Region: SEC-C; pfam02810 262727001066 hypothetical protein; Reviewed; Region: PRK01637 262727001067 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 262727001068 Sulfatase; Region: Sulfatase; cl17466 262727001069 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 262727001070 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 262727001071 HIGH motif; other site 262727001072 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 262727001073 active site 262727001074 KMSKS motif; other site 262727001075 ribonuclease PH; Reviewed; Region: rph; PRK00173 262727001076 Ribonuclease PH; Region: RNase_PH_bact; cd11362 262727001077 hexamer interface [polypeptide binding]; other site 262727001078 active site 262727001079 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 262727001080 active site 262727001081 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 262727001082 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 262727001083 putative metal binding site [ion binding]; other site 262727001084 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 262727001085 HSP70 interaction site [polypeptide binding]; other site 262727001086 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 262727001087 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 262727001088 FMN binding site [chemical binding]; other site 262727001089 active site 262727001090 catalytic residues [active] 262727001091 substrate binding site [chemical binding]; other site 262727001092 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 262727001093 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262727001094 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 262727001095 DNA binding residues [nucleotide binding] 262727001096 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 262727001097 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 262727001098 FAD binding domain; Region: FAD_binding_4; pfam01565 262727001099 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 262727001100 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 262727001101 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 262727001102 HAMP domain; Region: HAMP; pfam00672 262727001103 Histidine kinase; Region: HisKA_3; pfam07730 262727001104 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 262727001105 ATP binding site [chemical binding]; other site 262727001106 Mg2+ binding site [ion binding]; other site 262727001107 G-X-G motif; other site 262727001108 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 262727001109 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 262727001110 homooctamer interface [polypeptide binding]; other site 262727001111 active site 262727001112 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 262727001113 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 262727001114 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 262727001115 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 262727001116 Surface antigen; Region: Bac_surface_Ag; pfam01103 262727001117 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 262727001118 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 262727001119 N-terminal plug; other site 262727001120 ligand-binding site [chemical binding]; other site 262727001121 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 262727001122 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 262727001123 putative active site [active] 262727001124 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 262727001125 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 262727001126 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 262727001127 active site 262727001128 dimerization interface [polypeptide binding]; other site 262727001129 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...; Region: RaiA; cd00552 262727001130 30S subunit binding site; other site 262727001131 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 262727001132 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 262727001133 dihydrodipicolinate synthase; Region: dapA; TIGR00674 262727001134 dimer interface [polypeptide binding]; other site 262727001135 active site 262727001136 catalytic residue [active] 262727001137 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 262727001138 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 262727001139 catalytic triad [active] 262727001140 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 262727001141 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 262727001142 TonB system transport protein ExbD, group 2; Region: ExbD_2; TIGR02804 262727001143 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 262727001144 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 262727001145 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 262727001146 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 262727001147 Predicted metal-binding protein [General function prediction only]; Region: COG3019 262727001148 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 262727001149 dimerization interface [polypeptide binding]; other site 262727001150 putative DNA binding site [nucleotide binding]; other site 262727001151 putative Zn2+ binding site [ion binding]; other site 262727001152 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 262727001153 ArsC family; Region: ArsC; pfam03960 262727001154 catalytic residues [active] 262727001155 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 262727001156 Sodium Bile acid symporter family; Region: SBF; cl17470 262727001157 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 262727001158 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 262727001159 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 262727001160 DNA binding residues [nucleotide binding] 262727001161 dimer interface [polypeptide binding]; other site 262727001162 putative metal binding site [ion binding]; other site 262727001163 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 262727001164 Sodium Bile acid symporter family; Region: SBF; cl17470 262727001165 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 262727001166 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 262727001167 putative NAD(P) binding site [chemical binding]; other site 262727001168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 262727001169 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 262727001170 active site 262727001171 catalytic residues [active] 262727001172 DNA binding site [nucleotide binding] 262727001173 Int/Topo IB signature motif; other site 262727001174 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 262727001175 active site 262727001176 catalytic residues [active] 262727001177 DNA binding site [nucleotide binding] 262727001178 Int/Topo IB signature motif; other site 262727001179 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262727001180 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 262727001181 dimer interface [polypeptide binding]; other site 262727001182 ssDNA binding site [nucleotide binding]; other site 262727001183 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262727001184 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 262727001185 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 262727001186 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 262727001187 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 262727001188 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 262727001189 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 262727001190 Autotransporter beta-domain; Region: Autotransporter; pfam03797 262727001191 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 262727001192 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 262727001193 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 262727001194 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 262727001195 Hemerythrin-like domain; Region: Hr-like; cd12108 262727001196 Fe binding site [ion binding]; other site 262727001197 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 262727001198 CPxP motif; other site 262727001199 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 262727001200 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 262727001201 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 262727001202 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 262727001203 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 262727001204 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 262727001205 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 262727001206 Protein export membrane protein; Region: SecD_SecF; pfam02355 262727001207 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 262727001208 Domain of unknown function DUF20; Region: UPF0118; pfam01594 262727001209 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 262727001210 ArsC family; Region: ArsC; pfam03960 262727001211 catalytic residues [active] 262727001212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 262727001213 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 262727001214 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 262727001215 substrate binding pocket [chemical binding]; other site 262727001216 membrane-bound complex binding site; other site 262727001217 hinge residues; other site 262727001218 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 262727001219 N-acetyl-D-glucosamine binding site [chemical binding]; other site 262727001220 catalytic residue [active] 262727001221 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 262727001222 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 262727001223 ATP binding site [chemical binding]; other site 262727001224 Mg++ binding site [ion binding]; other site 262727001225 motif III; other site 262727001226 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 262727001227 nucleotide binding region [chemical binding]; other site 262727001228 ATP-binding site [chemical binding]; other site 262727001229 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 262727001230 putative RNA binding site [nucleotide binding]; other site 262727001231 Lipoprotein NlpI, contains TPR repeats [General function prediction only]; Region: NlpI; COG4785 262727001232 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 262727001233 binding surface 262727001234 TPR motif; other site 262727001235 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 262727001236 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 262727001237 RNase E interface [polypeptide binding]; other site 262727001238 trimer interface [polypeptide binding]; other site 262727001239 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 262727001240 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 262727001241 RNase E interface [polypeptide binding]; other site 262727001242 trimer interface [polypeptide binding]; other site 262727001243 active site 262727001244 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 262727001245 putative nucleic acid binding region [nucleotide binding]; other site 262727001246 G-X-X-G motif; other site 262727001247 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 262727001248 RNA binding site [nucleotide binding]; other site 262727001249 domain interface; other site 262727001250 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 262727001251 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 262727001252 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 262727001253 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 262727001254 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 262727001255 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 262727001256 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 262727001257 putative DNA binding site [nucleotide binding]; other site 262727001258 putative Zn2+ binding site [ion binding]; other site 262727001259 AsnC family; Region: AsnC_trans_reg; pfam01037 262727001260 Predicted permeases [General function prediction only]; Region: RarD; COG2962 262727001261 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 262727001262 GMP synthase; Reviewed; Region: guaA; PRK00074 262727001263 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 262727001264 AMP/PPi binding site [chemical binding]; other site 262727001265 candidate oxyanion hole; other site 262727001266 catalytic triad [active] 262727001267 potential glutamine specificity residues [chemical binding]; other site 262727001268 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 262727001269 ATP Binding subdomain [chemical binding]; other site 262727001270 Ligand Binding sites [chemical binding]; other site 262727001271 Dimerization subdomain; other site 262727001272 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 262727001273 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 262727001274 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 262727001275 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 262727001276 active site 262727001277 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 262727001278 HTH domain; Region: HTH_11; cl17392 262727001279 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 262727001280 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 262727001281 Predicted membrane protein [Function unknown]; Region: COG3223 262727001282 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 262727001283 HemY protein N-terminus; Region: HemY_N; pfam07219 262727001284 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 262727001285 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 262727001286 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 262727001287 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 262727001288 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 262727001289 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 262727001290 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 262727001291 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 262727001292 serine acetyltransferase; Provisional; Region: cysE; PRK11132 262727001293 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 262727001294 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 262727001295 trimer interface [polypeptide binding]; other site 262727001296 active site 262727001297 substrate binding site [chemical binding]; other site 262727001298 CoA binding site [chemical binding]; other site 262727001299 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 262727001300 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 262727001301 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 262727001302 shikimate binding site; other site 262727001303 NAD(P) binding site [chemical binding]; other site 262727001304 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 262727001305 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 262727001306 transmembrane helices; other site 262727001307 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 262727001308 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 262727001309 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 262727001310 homodimer interface [polypeptide binding]; other site 262727001311 NADP binding site [chemical binding]; other site 262727001312 substrate binding site [chemical binding]; other site 262727001313 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 262727001314 intersubunit interface [polypeptide binding]; other site 262727001315 active site 262727001316 Zn2+ binding site [ion binding]; other site 262727001317 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 262727001318 L-fuculokinase; Region: fuculo_kin_coli; TIGR02628 262727001319 L-fuculose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_FK; cd07773 262727001320 putative N- and C-terminal domain interface [polypeptide binding]; other site 262727001321 putative active site [active] 262727001322 putative MgATP binding site [chemical binding]; other site 262727001323 putative catalytic site [active] 262727001324 metal binding site [ion binding]; metal-binding site 262727001325 putative carbohydrate binding site [chemical binding]; other site 262727001326 L-fucose isomerase; Provisional; Region: fucI; PRK10991 262727001327 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 262727001328 hexamer (dimer of trimers) interface [polypeptide binding]; other site 262727001329 trimer interface [polypeptide binding]; other site 262727001330 substrate binding site [chemical binding]; other site 262727001331 Mn binding site [ion binding]; other site 262727001332 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 262727001333 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 262727001334 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 262727001335 ATP-dependent helicase HepA; Validated; Region: PRK04914 262727001336 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 262727001337 ATP binding site [chemical binding]; other site 262727001338 putative Mg++ binding site [ion binding]; other site 262727001339 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 262727001340 nucleotide binding region [chemical binding]; other site 262727001341 ATP-binding site [chemical binding]; other site 262727001342 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 262727001343 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 262727001344 active site 262727001345 Rhomboid family; Region: Rhomboid; pfam01694 262727001346 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 262727001347 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 262727001348 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 262727001349 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 262727001350 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 262727001351 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 262727001352 dimer interface [polypeptide binding]; other site 262727001353 conserved gate region; other site 262727001354 ABC-ATPase subunit interface; other site 262727001355 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 262727001356 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 262727001357 Walker A/P-loop; other site 262727001358 ATP binding site [chemical binding]; other site 262727001359 Q-loop/lid; other site 262727001360 ABC transporter signature motif; other site 262727001361 Walker B; other site 262727001362 D-loop; other site 262727001363 H-loop/switch region; other site 262727001364 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 262727001365 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 262727001366 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 262727001367 active site 262727001368 motif I; other site 262727001369 motif II; other site 262727001370 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 262727001371 putative uracil binding site [chemical binding]; other site 262727001372 putative active site [active] 262727001373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 262727001374 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 262727001375 dimer interface [polypeptide binding]; other site 262727001376 phosphorylation site [posttranslational modification] 262727001377 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 262727001378 ATP binding site [chemical binding]; other site 262727001379 Mg2+ binding site [ion binding]; other site 262727001380 G-X-G motif; other site 262727001381 Response regulator receiver domain; Region: Response_reg; pfam00072 262727001382 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 262727001383 active site 262727001384 phosphorylation site [posttranslational modification] 262727001385 intermolecular recognition site; other site 262727001386 dimerization interface [polypeptide binding]; other site 262727001387 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 262727001388 putative binding surface; other site 262727001389 active site 262727001390 Predicted membrane protein [Function unknown]; Region: COG3059 262727001391 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 262727001392 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 262727001393 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 262727001394 ATP binding site [chemical binding]; other site 262727001395 putative Mg++ binding site [ion binding]; other site 262727001396 Virulence protein [General function prediction only]; Region: COG3943 262727001397 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 262727001398 AAA domain; Region: AAA_13; pfam13166 262727001399 AAA domain; Region: AAA_13; pfam13166 262727001400 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 262727001401 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 262727001402 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 262727001403 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 262727001404 HsdM N-terminal domain; Region: HsdM_N; pfam12161 262727001405 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 262727001406 S-adenosylmethionine binding site [chemical binding]; other site 262727001407 oligopeptidase A; Provisional; Region: PRK10911 262727001408 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 262727001409 active site 262727001410 Zn binding site [ion binding]; other site 262727001411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 262727001412 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 262727001413 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 262727001414 peptide binding site [polypeptide binding]; other site 262727001415 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 262727001416 dimerization interface [polypeptide binding]; other site 262727001417 active site 262727001418 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 262727001419 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 262727001420 active site 262727001421 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 262727001422 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 262727001423 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 262727001424 active site 262727001425 dimer interface [polypeptide binding]; other site 262727001426 metal binding site [ion binding]; metal-binding site 262727001427 shikimate kinase; Reviewed; Region: aroK; PRK00131 262727001428 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 262727001429 ADP binding site [chemical binding]; other site 262727001430 magnesium binding site [ion binding]; other site 262727001431 putative shikimate binding site; other site 262727001432 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 262727001433 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 262727001434 active site 262727001435 metal binding site [ion binding]; metal-binding site 262727001436 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 262727001437 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 262727001438 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 262727001439 RimM N-terminal domain; Region: RimM; pfam01782 262727001440 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 262727001441 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 262727001442 selenophosphate synthetase; Provisional; Region: PRK00943 262727001443 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 262727001444 dimerization interface [polypeptide binding]; other site 262727001445 putative ATP binding site [chemical binding]; other site 262727001446 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 262727001447 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 262727001448 putative acyl-acceptor binding pocket; other site 262727001449 hypothetical protein; Provisional; Region: PRK10621 262727001450 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 262727001451 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 262727001452 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 262727001453 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 262727001454 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 262727001455 Tetramer interface [polypeptide binding]; other site 262727001456 active site 262727001457 FMN-binding site [chemical binding]; other site 262727001458 hypothetical protein; Provisional; Region: PRK11281 262727001459 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 262727001460 Mechanosensitive ion channel; Region: MS_channel; pfam00924 262727001461 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 262727001462 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 262727001463 acyl-activating enzyme (AAE) consensus motif; other site 262727001464 putative AMP binding site [chemical binding]; other site 262727001465 putative active site [active] 262727001466 putative CoA binding site [chemical binding]; other site 262727001467 replication initiation regulator SeqA; Provisional; Region: PRK11187 262727001468 acyl-CoA esterase; Provisional; Region: PRK10673 262727001469 PGAP1-like protein; Region: PGAP1; pfam07819 262727001470 flavodoxin FldA; Validated; Region: PRK09267 262727001471 ferric uptake regulator; Provisional; Region: fur; PRK09462 262727001472 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 262727001473 metal binding site 2 [ion binding]; metal-binding site 262727001474 putative DNA binding helix; other site 262727001475 metal binding site 1 [ion binding]; metal-binding site 262727001476 dimer interface [polypeptide binding]; other site 262727001477 structural Zn2+ binding site [ion binding]; other site 262727001478 glutamate dehydrogenase; Provisional; Region: PRK09414 262727001479 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 262727001480 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 262727001481 NAD(P) binding site [chemical binding]; other site 262727001482 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 262727001483 sec-independent translocase; Provisional; Region: PRK01770 262727001484 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 262727001485 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 262727001486 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 262727001487 DNA binding residues [nucleotide binding] 262727001488 putative dimer interface [polypeptide binding]; other site 262727001489 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 262727001490 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 262727001491 substrate binding site [chemical binding]; other site 262727001492 catalytic Zn binding site [ion binding]; other site 262727001493 NAD binding site [chemical binding]; other site 262727001494 structural Zn binding site [ion binding]; other site 262727001495 dimer interface [polypeptide binding]; other site 262727001496 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 262727001497 S-formylglutathione hydrolase; Region: PLN02442 262727001498 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 262727001499 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 262727001500 fructokinase; Reviewed; Region: PRK09557 262727001501 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 262727001502 nucleotide binding site [chemical binding]; other site 262727001503 formate transporter FocA; Region: formate_focA; TIGR04060 262727001504 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 262727001505 Pyruvate formate lyase 1; Region: PFL1; cd01678 262727001506 coenzyme A binding site [chemical binding]; other site 262727001507 active site 262727001508 catalytic residues [active] 262727001509 glycine loop; other site 262727001510 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 262727001511 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 262727001512 FeS/SAM binding site; other site 262727001513 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 262727001514 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 262727001515 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 262727001516 RNA binding surface [nucleotide binding]; other site 262727001517 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 262727001518 active site 262727001519 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 262727001520 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 262727001521 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 262727001522 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 262727001523 Ligand Binding Site [chemical binding]; other site 262727001524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 262727001525 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 262727001526 ApbE family; Region: ApbE; pfam02424 262727001527 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 262727001528 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 262727001529 FAD binding pocket [chemical binding]; other site 262727001530 FAD binding motif [chemical binding]; other site 262727001531 phosphate binding motif [ion binding]; other site 262727001532 beta-alpha-beta structure motif; other site 262727001533 NAD binding pocket [chemical binding]; other site 262727001534 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 262727001535 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 262727001536 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 262727001537 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 262727001538 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 262727001539 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 262727001540 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 262727001541 E3 interaction surface; other site 262727001542 lipoyl attachment site [posttranslational modification]; other site 262727001543 Pleckstrin homology-like domain; Region: PH-like; cl17171 262727001544 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 262727001545 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 262727001546 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 262727001547 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 262727001548 glutathione reductase; Validated; Region: PRK06116 262727001549 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 262727001550 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 262727001551 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 262727001552 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 262727001553 hypothetical protein; Provisional; Region: PRK11193 262727001554 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 262727001555 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 262727001556 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 262727001557 dimer interface [polypeptide binding]; other site 262727001558 active site 262727001559 CoA binding pocket [chemical binding]; other site 262727001560 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 262727001561 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 262727001562 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 262727001563 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 262727001564 NAD(P) binding site [chemical binding]; other site 262727001565 homotetramer interface [polypeptide binding]; other site 262727001566 homodimer interface [polypeptide binding]; other site 262727001567 active site 262727001568 acyl carrier protein; Provisional; Region: acpP; PRK00982 262727001569 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 262727001570 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 262727001571 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 262727001572 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 262727001573 FtsH protease regulator HflK; Provisional; Region: PRK10930 262727001574 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 262727001575 FtsH protease regulator HflC; Provisional; Region: PRK11029 262727001576 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 262727001577 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 262727001578 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 262727001579 Kelch motif; Region: Kelch_1; pfam01344 262727001580 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 262727001581 DctM-like transporters; Region: DctM; pfam06808 262727001582 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 262727001583 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 262727001584 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 262727001585 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 262727001586 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 262727001587 putative active site cavity [active] 262727001588 N-acetylmannosamine kinase; Provisional; Region: PRK05082 262727001589 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 262727001590 nucleotide binding site [chemical binding]; other site 262727001591 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 262727001592 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 262727001593 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 262727001594 putative active site [active] 262727001595 N-acetylneuraminate lyase; Provisional; Region: PRK04147 262727001596 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 262727001597 inhibitor site; inhibition site 262727001598 active site 262727001599 dimer interface [polypeptide binding]; other site 262727001600 catalytic residue [active] 262727001601 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 262727001602 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 262727001603 active site 262727001604 trimer interface [polypeptide binding]; other site 262727001605 allosteric site; other site 262727001606 active site lid [active] 262727001607 hexamer (dimer of trimers) interface [polypeptide binding]; other site 262727001608 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 262727001609 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 262727001610 active site 262727001611 dimer interface [polypeptide binding]; other site 262727001612 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 262727001613 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 262727001614 trimer interface [polypeptide binding]; other site 262727001615 eyelet of channel; other site 262727001616 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 262727001617 RNA/DNA hybrid binding site [nucleotide binding]; other site 262727001618 active site 262727001619 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 262727001620 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 262727001621 active site 262727001622 catalytic site [active] 262727001623 substrate binding site [chemical binding]; other site 262727001624 GTP-binding protein Der; Reviewed; Region: PRK00093 262727001625 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 262727001626 G1 box; other site 262727001627 GTP/Mg2+ binding site [chemical binding]; other site 262727001628 Switch I region; other site 262727001629 G2 box; other site 262727001630 Switch II region; other site 262727001631 G3 box; other site 262727001632 G4 box; other site 262727001633 G5 box; other site 262727001634 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 262727001635 G1 box; other site 262727001636 GTP/Mg2+ binding site [chemical binding]; other site 262727001637 Switch I region; other site 262727001638 G2 box; other site 262727001639 G3 box; other site 262727001640 Switch II region; other site 262727001641 G4 box; other site 262727001642 G5 box; other site 262727001643 putative arabinose transporter; Provisional; Region: PRK03545 262727001644 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 262727001645 putative substrate translocation pore; other site 262727001646 TIGR03545 family protein; Region: TIGR03545 262727001647 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 262727001648 trimer interface [polypeptide binding]; other site 262727001649 active site 262727001650 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 262727001651 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 262727001652 Sugar specificity; other site 262727001653 Pyrimidine base specificity; other site 262727001654 ATP-binding site [chemical binding]; other site 262727001655 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 262727001656 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 262727001657 dimer interface [polypeptide binding]; other site 262727001658 substrate binding site [chemical binding]; other site 262727001659 metal binding sites [ion binding]; metal-binding site 262727001660 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 262727001661 cystathionine beta-lyase; Provisional; Region: PRK08114 262727001662 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 262727001663 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 262727001664 catalytic residue [active] 262727001665 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 262727001666 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 262727001667 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 262727001668 Uncharacterized integral membrane protein [Function unknown]; Region: COG5413 262727001669 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 262727001670 metal binding site [ion binding]; metal-binding site 262727001671 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 262727001672 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 262727001673 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 262727001674 putative ATP binding site [chemical binding]; other site 262727001675 putative substrate interface [chemical binding]; other site 262727001676 murein transglycosylase A; Provisional; Region: mltA; PRK11162 262727001677 MltA specific insert domain; Region: MltA; smart00925 262727001678 3D domain; Region: 3D; pfam06725 262727001679 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 262727001680 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 262727001681 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 262727001682 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 262727001683 putative RNA binding site [nucleotide binding]; other site 262727001684 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 262727001685 S-adenosylmethionine binding site [chemical binding]; other site 262727001686 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 262727001687 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 262727001688 N-terminal plug; other site 262727001689 ligand-binding site [chemical binding]; other site 262727001690 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 262727001691 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 262727001692 C-terminal domain interface [polypeptide binding]; other site 262727001693 GSH binding site (G-site) [chemical binding]; other site 262727001694 dimer interface [polypeptide binding]; other site 262727001695 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 262727001696 dimer interface [polypeptide binding]; other site 262727001697 N-terminal domain interface [polypeptide binding]; other site 262727001698 substrate binding pocket (H-site) [chemical binding]; other site 262727001699 seryl-tRNA synthetase; Provisional; Region: PRK05431 262727001700 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 262727001701 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 262727001702 dimer interface [polypeptide binding]; other site 262727001703 active site 262727001704 motif 1; other site 262727001705 motif 2; other site 262727001706 motif 3; other site 262727001707 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 262727001708 Uncharacterized conserved protein [Function unknown]; Region: COG2966 262727001709 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 262727001710 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 262727001711 Domain of unknown function DUF21; Region: DUF21; pfam01595 262727001712 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 262727001713 Transporter associated domain; Region: CorC_HlyC; smart01091 262727001714 signal recognition particle protein; Provisional; Region: PRK10867 262727001715 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 262727001716 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 262727001717 P loop; other site 262727001718 GTP binding site [chemical binding]; other site 262727001719 Signal peptide binding domain; Region: SRP_SPB; pfam02978 262727001720 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 262727001721 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 262727001722 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 262727001723 Divergent AAA domain; Region: AAA_4; pfam04326 262727001724 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 262727001725 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 262727001726 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 262727001727 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 262727001728 HsdM N-terminal domain; Region: HsdM_N; pfam12161 262727001729 Methyltransferase domain; Region: Methyltransf_26; pfam13659 262727001730 Uncharacterized conserved protein [Function unknown]; Region: COG0327 262727001731 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 262727001732 heat shock protein 90; Provisional; Region: PRK05218 262727001733 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 262727001734 ATP binding site [chemical binding]; other site 262727001735 Mg2+ binding site [ion binding]; other site 262727001736 G-X-G motif; other site 262727001737 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 262727001738 ArsC family; Region: ArsC; pfam03960 262727001739 putative catalytic residues [active] 262727001740 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 262727001741 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 262727001742 metal binding site [ion binding]; metal-binding site 262727001743 dimer interface [polypeptide binding]; other site 262727001744 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 262727001745 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 262727001746 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 262727001747 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 262727001748 Walker A/P-loop; other site 262727001749 ATP binding site [chemical binding]; other site 262727001750 Q-loop/lid; other site 262727001751 ABC transporter signature motif; other site 262727001752 Walker B; other site 262727001753 D-loop; other site 262727001754 H-loop/switch region; other site 262727001755 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 262727001756 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 262727001757 dimer interface [polypeptide binding]; other site 262727001758 conserved gate region; other site 262727001759 putative PBP binding loops; other site 262727001760 ABC-ATPase subunit interface; other site 262727001761 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 262727001762 dimer interface [polypeptide binding]; other site 262727001763 conserved gate region; other site 262727001764 putative PBP binding loops; other site 262727001765 ABC-ATPase subunit interface; other site 262727001766 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 262727001767 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 262727001768 Methyltransferase domain; Region: Methyltransf_31; pfam13847 262727001769 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 262727001770 S-adenosylmethionine binding site [chemical binding]; other site 262727001771 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 262727001772 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 262727001773 Glycerate kinase family; Region: Gly_kinase; pfam02595 262727001774 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 262727001775 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 262727001776 catalytic residue [active] 262727001777 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 262727001778 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 262727001779 nucleotide binding site [chemical binding]; other site 262727001780 substrate binding site [chemical binding]; other site 262727001781 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 262727001782 dimer interface [polypeptide binding]; other site 262727001783 putative threonine allosteric regulatory site; other site 262727001784 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 262727001785 putative threonine allosteric regulatory site; other site 262727001786 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 262727001787 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 262727001788 homoserine kinase; Region: thrB; TIGR00191 262727001789 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 262727001790 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 262727001791 threonine synthase; Validated; Region: PRK09225 262727001792 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 262727001793 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 262727001794 catalytic residue [active] 262727001795 cystathionine gamma-synthase; Reviewed; Region: PRK08247 262727001796 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 262727001797 homodimer interface [polypeptide binding]; other site 262727001798 substrate-cofactor binding pocket; other site 262727001799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727001800 catalytic residue [active] 262727001801 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 262727001802 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 262727001803 putative ligand binding site [chemical binding]; other site 262727001804 putative NAD binding site [chemical binding]; other site 262727001805 catalytic site [active] 262727001806 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 262727001807 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 262727001808 catalytic residues [active] 262727001809 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 262727001810 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 262727001811 active site 262727001812 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 262727001813 substrate binding site [chemical binding]; other site 262727001814 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 262727001815 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 262727001816 active site 262727001817 HIGH motif; other site 262727001818 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 262727001819 KMSKS motif; other site 262727001820 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 262727001821 tRNA binding surface [nucleotide binding]; other site 262727001822 anticodon binding site; other site 262727001823 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 262727001824 dinuclear metal binding motif [ion binding]; other site 262727001825 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 262727001826 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 262727001827 active site 262727001828 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 262727001829 catalytic triad [active] 262727001830 dimer interface [polypeptide binding]; other site 262727001831 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 262727001832 ATP cone domain; Region: ATP-cone; pfam03477 262727001833 Class III ribonucleotide reductase; Region: RNR_III; cd01675 262727001834 effector binding site; other site 262727001835 active site 262727001836 Zn binding site [ion binding]; other site 262727001837 glycine loop; other site 262727001838 nucleotidyltransferase substrate binding protein, HI0074 family; Region: HI0074; TIGR01987 262727001839 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 262727001840 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 262727001841 dimer interface [polypeptide binding]; other site 262727001842 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 262727001843 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 262727001844 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 262727001845 DNA repair protein RecN; Region: recN; TIGR00634 262727001846 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 262727001847 Walker A/P-loop; other site 262727001848 ATP binding site [chemical binding]; other site 262727001849 Q-loop/lid; other site 262727001850 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 262727001851 ABC transporter signature motif; other site 262727001852 Walker B; other site 262727001853 D-loop; other site 262727001854 H-loop/switch region; other site 262727001855 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 262727001856 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 262727001857 metal binding triad; other site 262727001858 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 262727001859 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 262727001860 metal binding triad; other site 262727001861 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 262727001862 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 262727001863 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 262727001864 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 262727001865 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 262727001866 ATP binding site [chemical binding]; other site 262727001867 Mg2+ binding site [ion binding]; other site 262727001868 G-X-G motif; other site 262727001869 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 262727001870 ATP binding site [chemical binding]; other site 262727001871 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 262727001872 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 262727001873 active site 262727001874 metal binding site [ion binding]; metal-binding site 262727001875 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 262727001876 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 262727001877 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 262727001878 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 262727001879 tRNA threonylcarbamoyl adenosine modification protein YjeE; Region: T6A_YjeE; TIGR00150 262727001880 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 262727001881 catalytic center binding site [active] 262727001882 ATP binding site [chemical binding]; other site 262727001883 poly(A) polymerase; Region: pcnB; TIGR01942 262727001884 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 262727001885 active site 262727001886 NTP binding site [chemical binding]; other site 262727001887 metal binding triad [ion binding]; metal-binding site 262727001888 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 262727001889 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 262727001890 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 262727001891 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 262727001892 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 262727001893 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 262727001894 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 262727001895 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 262727001896 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 262727001897 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 262727001898 Walker A/P-loop; other site 262727001899 ATP binding site [chemical binding]; other site 262727001900 Q-loop/lid; other site 262727001901 ABC transporter signature motif; other site 262727001902 Walker B; other site 262727001903 D-loop; other site 262727001904 H-loop/switch region; other site 262727001905 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 262727001906 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 262727001907 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 262727001908 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 262727001909 Ligand binding site; other site 262727001910 oligomer interface; other site 262727001911 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 262727001912 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 262727001913 GIY-YIG motif/motif A; other site 262727001914 active site 262727001915 catalytic site [active] 262727001916 putative DNA binding site [nucleotide binding]; other site 262727001917 metal binding site [ion binding]; metal-binding site 262727001918 UvrB/uvrC motif; Region: UVR; pfam02151 262727001919 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 262727001920 Helix-hairpin-helix motif; Region: HHH; pfam00633 262727001921 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 262727001922 mannonate dehydratase; Provisional; Region: PRK03906 262727001923 mannonate dehydratase; Region: uxuA; TIGR00695 262727001924 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 262727001925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 262727001926 DNA-binding site [nucleotide binding]; DNA binding site 262727001927 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 262727001928 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 262727001929 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 262727001930 putative NAD(P) binding site [chemical binding]; other site 262727001931 catalytic Zn binding site [ion binding]; other site 262727001932 structural Zn binding site [ion binding]; other site 262727001933 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 262727001934 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 262727001935 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 262727001936 DctM-like transporters; Region: DctM; pfam06808 262727001937 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 262727001938 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 262727001939 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 262727001940 substrate binding site [chemical binding]; other site 262727001941 ATP binding site [chemical binding]; other site 262727001942 D-mannonate oxidoreductase; Provisional; Region: PRK08277 262727001943 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 262727001944 putative NAD(P) binding site [chemical binding]; other site 262727001945 active site 262727001946 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 262727001947 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 262727001948 active site 262727001949 intersubunit interface [polypeptide binding]; other site 262727001950 catalytic residue [active] 262727001951 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 262727001952 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 262727001953 PhnA protein; Region: PhnA; pfam03831 262727001954 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 262727001955 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 262727001956 YccA-like proteins; Region: YccA_like; cd10433 262727001957 Predicted membrane protein [Function unknown]; Region: COG3768 262727001958 TIGR01620 family protein; Region: hyp_HI0043 262727001959 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 262727001960 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 262727001961 active site 262727001962 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 262727001963 putative catalytic site [active] 262727001964 putative phosphate binding site [ion binding]; other site 262727001965 active site 262727001966 metal binding site A [ion binding]; metal-binding site 262727001967 DNA binding site [nucleotide binding] 262727001968 putative AP binding site [nucleotide binding]; other site 262727001969 putative metal binding site B [ion binding]; other site 262727001970 TIGR01619 family protein; Region: hyp_HI0040 262727001971 Family of unknown function (DUF695); Region: DUF695; pfam05117 262727001972 rod shape-determining protein MreD; Region: MreD; cl01087 262727001973 rod shape-determining protein MreC; Region: mreC; TIGR00219 262727001974 rod shape-determining protein MreC; Region: MreC; pfam04085 262727001975 rod shape-determining protein MreB; Provisional; Region: PRK13927 262727001976 MreB and similar proteins; Region: MreB_like; cd10225 262727001977 nucleotide binding site [chemical binding]; other site 262727001978 Mg binding site [ion binding]; other site 262727001979 putative protofilament interaction site [polypeptide binding]; other site 262727001980 RodZ interaction site [polypeptide binding]; other site 262727001981 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 262727001982 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 262727001983 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 262727001984 putative transporter; Validated; Region: PRK03818 262727001985 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 262727001986 TrkA-C domain; Region: TrkA_C; pfam02080 262727001987 TrkA-C domain; Region: TrkA_C; pfam02080 262727001988 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 262727001989 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 262727001990 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 262727001991 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 262727001992 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 262727001993 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 262727001994 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 262727001995 rare lipoprotein A; Region: rlpA; TIGR00413 262727001996 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 262727001997 Sporulation related domain; Region: SPOR; pfam05036 262727001998 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 262727001999 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 262727002000 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 262727002001 hypothetical protein; Provisional; Region: PRK04998 262727002002 lipoate-protein ligase B; Provisional; Region: PRK14342 262727002003 lipoyl synthase; Provisional; Region: PRK05481 262727002004 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 262727002005 FeS/SAM binding site; other site 262727002006 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 262727002007 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 262727002008 putative active site [active] 262727002009 (T/H)XGH motif; other site 262727002010 citrate lyase subunit gamma; Provisional; Region: PRK13253 262727002011 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 262727002012 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 262727002013 holo-ACP synthase CitX; Region: citrate_citX; TIGR03124 262727002014 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 262727002015 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 262727002016 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 262727002017 transmembrane helices; other site 262727002018 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 262727002019 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 262727002020 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 262727002021 FeS/SAM binding site; other site 262727002022 TRAM domain; Region: TRAM; pfam01938 262727002023 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 262727002024 ligand binding site [chemical binding]; other site 262727002025 active site 262727002026 UGI interface [polypeptide binding]; other site 262727002027 catalytic site [active] 262727002028 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 262727002029 GTP-binding protein LepA; Provisional; Region: PRK05433 262727002030 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 262727002031 G1 box; other site 262727002032 putative GEF interaction site [polypeptide binding]; other site 262727002033 GTP/Mg2+ binding site [chemical binding]; other site 262727002034 Switch I region; other site 262727002035 G2 box; other site 262727002036 G3 box; other site 262727002037 Switch II region; other site 262727002038 G4 box; other site 262727002039 G5 box; other site 262727002040 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 262727002041 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 262727002042 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 262727002043 signal peptidase I; Provisional; Region: PRK10861 262727002044 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 262727002045 Catalytic site [active] 262727002046 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 262727002047 ribonuclease III; Reviewed; Region: rnc; PRK00102 262727002048 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 262727002049 dimerization interface [polypeptide binding]; other site 262727002050 active site 262727002051 metal binding site [ion binding]; metal-binding site 262727002052 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 262727002053 dsRNA binding site [nucleotide binding]; other site 262727002054 GTPase Era; Reviewed; Region: era; PRK00089 262727002055 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 262727002056 G1 box; other site 262727002057 GTP/Mg2+ binding site [chemical binding]; other site 262727002058 Switch I region; other site 262727002059 G2 box; other site 262727002060 Switch II region; other site 262727002061 G3 box; other site 262727002062 G4 box; other site 262727002063 G5 box; other site 262727002064 KH domain; Region: KH_2; pfam07650 262727002065 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 262727002066 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 262727002067 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 262727002068 S-adenosylmethionine binding site [chemical binding]; other site 262727002069 DNA polymerase III, psi subunit; Region: DNA_III_psi; TIGR00664 262727002070 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 262727002071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 262727002072 Coenzyme A binding pocket [chemical binding]; other site 262727002073 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 262727002074 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 262727002075 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 262727002076 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 262727002077 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 262727002078 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 262727002079 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 262727002080 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 262727002081 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 262727002082 [4Fe-4S] binding site [ion binding]; other site 262727002083 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 262727002084 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 262727002085 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 262727002086 molybdopterin cofactor binding site; other site 262727002087 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 262727002088 metal-binding heat shock protein; Provisional; Region: PRK00016 262727002089 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 262727002090 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 262727002091 active site 262727002092 motif I; other site 262727002093 motif II; other site 262727002094 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 262727002095 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 262727002096 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 262727002097 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 262727002098 acyl-activating enzyme (AAE) consensus motif; other site 262727002099 putative AMP binding site [chemical binding]; other site 262727002100 putative active site [active] 262727002101 putative CoA binding site [chemical binding]; other site 262727002102 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 262727002103 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 262727002104 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 262727002105 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 262727002106 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 262727002107 catalytic site [active] 262727002108 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 262727002109 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 262727002110 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 262727002111 Zn2+ binding site [ion binding]; other site 262727002112 Mg2+ binding site [ion binding]; other site 262727002113 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 262727002114 synthetase active site [active] 262727002115 NTP binding site [chemical binding]; other site 262727002116 metal binding site [ion binding]; metal-binding site 262727002117 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 262727002118 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 262727002119 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 262727002120 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 262727002121 generic binding surface II; other site 262727002122 ssDNA binding site; other site 262727002123 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 262727002124 ATP binding site [chemical binding]; other site 262727002125 putative Mg++ binding site [ion binding]; other site 262727002126 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 262727002127 nucleotide binding region [chemical binding]; other site 262727002128 ATP-binding site [chemical binding]; other site 262727002129 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 262727002130 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 262727002131 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 262727002132 phosphate binding site [ion binding]; other site 262727002133 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 262727002134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 262727002135 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 262727002136 putative dimerization interface [polypeptide binding]; other site 262727002137 AzlC protein; Region: AzlC; cl00570 262727002138 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 262727002139 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 262727002140 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 262727002141 G1 box; other site 262727002142 putative GEF interaction site [polypeptide binding]; other site 262727002143 GTP/Mg2+ binding site [chemical binding]; other site 262727002144 Switch I region; other site 262727002145 G2 box; other site 262727002146 G3 box; other site 262727002147 Switch II region; other site 262727002148 G4 box; other site 262727002149 G5 box; other site 262727002150 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 262727002151 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 262727002152 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 262727002153 NAD binding site [chemical binding]; other site 262727002154 homotetramer interface [polypeptide binding]; other site 262727002155 homodimer interface [polypeptide binding]; other site 262727002156 substrate binding site [chemical binding]; other site 262727002157 active site 262727002158 exoribonuclease II; Provisional; Region: PRK05054 262727002159 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 262727002160 RNB domain; Region: RNB; pfam00773 262727002161 S1 RNA binding domain; Region: S1; pfam00575 262727002162 RNA binding site [nucleotide binding]; other site 262727002163 YadA-like C-terminal region; Region: YadA; pfam03895 262727002164 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 262727002165 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 262727002166 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 262727002167 argininosuccinate synthase; Provisional; Region: PRK13820 262727002168 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 262727002169 ANP binding site [chemical binding]; other site 262727002170 Substrate Binding Site II [chemical binding]; other site 262727002171 Substrate Binding Site I [chemical binding]; other site 262727002172 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 262727002173 ATP binding site [chemical binding]; other site 262727002174 active site 262727002175 substrate binding site [chemical binding]; other site 262727002176 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 262727002177 Transglycosylase; Region: Transgly; pfam00912 262727002178 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 262727002179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3112 262727002180 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 262727002181 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 262727002182 active site 262727002183 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 262727002184 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 262727002185 metal binding triad; other site 262727002186 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 262727002187 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 262727002188 Zn2+ binding site [ion binding]; other site 262727002189 Mg2+ binding site [ion binding]; other site 262727002190 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 262727002191 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 262727002192 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 262727002193 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 262727002194 Mg++ binding site [ion binding]; other site 262727002195 putative catalytic motif [active] 262727002196 substrate binding site [chemical binding]; other site 262727002197 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 262727002198 catalytic site [active] 262727002199 putative active site [active] 262727002200 putative substrate binding site [chemical binding]; other site 262727002201 dimer interface [polypeptide binding]; other site 262727002202 GTPase RsgA; Reviewed; Region: PRK12288 262727002203 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 262727002204 RNA binding site [nucleotide binding]; other site 262727002205 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 262727002206 GTPase/Zn-binding domain interface [polypeptide binding]; other site 262727002207 GTP/Mg2+ binding site [chemical binding]; other site 262727002208 G4 box; other site 262727002209 G5 box; other site 262727002210 G1 box; other site 262727002211 Switch I region; other site 262727002212 G2 box; other site 262727002213 G3 box; other site 262727002214 Switch II region; other site 262727002215 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 262727002216 dimerization domain swap beta strand [polypeptide binding]; other site 262727002217 regulatory protein interface [polypeptide binding]; other site 262727002218 active site 262727002219 regulatory phosphorylation site [posttranslational modification]; other site 262727002220 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 262727002221 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 262727002222 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 262727002223 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 262727002224 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 262727002225 HPr interaction site; other site 262727002226 glycerol kinase (GK) interaction site [polypeptide binding]; other site 262727002227 active site 262727002228 phosphorylation site [posttranslational modification] 262727002229 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 262727002230 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 262727002231 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 262727002232 active site 262727002233 phosphorylation site [posttranslational modification] 262727002234 intermolecular recognition site; other site 262727002235 dimerization interface [polypeptide binding]; other site 262727002236 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 262727002237 DNA binding site [nucleotide binding] 262727002238 sensor protein QseC; Provisional; Region: PRK10337 262727002239 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 262727002240 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 262727002241 dimer interface [polypeptide binding]; other site 262727002242 phosphorylation site [posttranslational modification] 262727002243 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 262727002244 ATP binding site [chemical binding]; other site 262727002245 Mg2+ binding site [ion binding]; other site 262727002246 G-X-G motif; other site 262727002247 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 262727002248 multifunctional aminopeptidase A; Provisional; Region: PRK00913 262727002249 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 262727002250 interface (dimer of trimers) [polypeptide binding]; other site 262727002251 Substrate-binding/catalytic site; other site 262727002252 Zn-binding sites [ion binding]; other site 262727002253 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 262727002254 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 262727002255 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 262727002256 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 262727002257 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 262727002258 CIMS - Cobalamine-independent methonine synthase, or MetE, N-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_N_terminal_like; cd03312 262727002259 THF binding site; other site 262727002260 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 262727002261 substrate binding site [chemical binding]; other site 262727002262 THF binding site; other site 262727002263 zinc-binding site [ion binding]; other site 262727002264 Uncharacterized conserved protein [Function unknown]; Region: COG1434 262727002265 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 262727002266 putative active site [active] 262727002267 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 262727002268 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 262727002269 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 262727002270 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 262727002271 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 262727002272 putative ADP-binding pocket [chemical binding]; other site 262727002273 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 262727002274 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 262727002275 colanic acid biosynthesis glycosyl transferase WcaA; Region: WcaA; TIGR04017 262727002276 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 262727002277 active site 262727002278 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 262727002279 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 262727002280 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 262727002281 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 262727002282 molybdenum-pterin binding domain; Region: Mop; TIGR00638 262727002283 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 262727002284 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 262727002285 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 262727002286 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 262727002287 dimer interface [polypeptide binding]; other site 262727002288 conserved gate region; other site 262727002289 putative PBP binding loops; other site 262727002290 ABC-ATPase subunit interface; other site 262727002291 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 262727002292 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727002293 Walker A/P-loop; other site 262727002294 ATP binding site [chemical binding]; other site 262727002295 Q-loop/lid; other site 262727002296 ABC transporter signature motif; other site 262727002297 Walker B; other site 262727002298 D-loop; other site 262727002299 H-loop/switch region; other site 262727002300 molybdenum-pterin binding domain; Region: Mop; TIGR00638 262727002301 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 262727002302 Na2 binding site [ion binding]; other site 262727002303 putative substrate binding site 1 [chemical binding]; other site 262727002304 Na binding site 1 [ion binding]; other site 262727002305 putative substrate binding site 2 [chemical binding]; other site 262727002306 endonuclease III; Provisional; Region: PRK10702 262727002307 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 262727002308 minor groove reading motif; other site 262727002309 helix-hairpin-helix signature motif; other site 262727002310 substrate binding pocket [chemical binding]; other site 262727002311 active site 262727002312 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 262727002313 electron transport complex RsxE subunit; Provisional; Region: PRK12405 262727002314 electron transport complex protein RnfG; Validated; Region: PRK01908 262727002315 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 262727002316 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 262727002317 SLBB domain; Region: SLBB; pfam10531 262727002318 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 262727002319 electron transport complex protein RnfB; Provisional; Region: PRK05113 262727002320 Putative Fe-S cluster; Region: FeS; pfam04060 262727002321 4Fe-4S binding domain; Region: Fer4; pfam00037 262727002322 electron transport complex protein RsxA; Provisional; Region: PRK05151 262727002323 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 262727002324 putative inner membrane peptidase; Provisional; Region: PRK11778 262727002325 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 262727002326 tandem repeat interface [polypeptide binding]; other site 262727002327 oligomer interface [polypeptide binding]; other site 262727002328 active site residues [active] 262727002329 hypothetical protein; Provisional; Region: PRK01904 262727002330 hypothetical protein; Provisional; Region: PRK03641 262727002331 TIGR01666 family membrane protein; Region: YCCS 262727002332 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 262727002333 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 262727002334 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 262727002335 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 262727002336 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 262727002337 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 262727002338 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 262727002339 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 262727002340 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 262727002341 active site 262727002342 motif I; other site 262727002343 motif II; other site 262727002344 KpsF/GutQ family protein; Region: kpsF; TIGR00393 262727002345 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 262727002346 putative active site [active] 262727002347 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 262727002348 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 262727002349 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 262727002350 Hemerythrin-like domain; Region: Hr-like; cd12108 262727002351 Fe binding site [ion binding]; other site 262727002352 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 262727002353 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 262727002354 FeS/SAM binding site; other site 262727002355 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 262727002356 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 262727002357 trimer interface [polypeptide binding]; other site 262727002358 dimer interface [polypeptide binding]; other site 262727002359 putative active site [active] 262727002360 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 262727002361 MoaE interaction surface [polypeptide binding]; other site 262727002362 MoeB interaction surface [polypeptide binding]; other site 262727002363 thiocarboxylated glycine; other site 262727002364 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 262727002365 MoaE homodimer interface [polypeptide binding]; other site 262727002366 MoaD interaction [polypeptide binding]; other site 262727002367 active site residues [active] 262727002368 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 262727002369 mce related protein; Region: MCE; pfam02470 262727002370 mce related protein; Region: MCE; pfam02470 262727002371 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 262727002372 mce related protein; Region: MCE; pfam02470 262727002373 mce related protein; Region: MCE; pfam02470 262727002374 mce related protein; Region: MCE; pfam02470 262727002375 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 262727002376 Paraquat-inducible protein A; Region: PqiA; pfam04403 262727002377 Paraquat-inducible protein A; Region: PqiA; pfam04403 262727002378 ProP expression regulator; Provisional; Region: PRK04950 262727002379 ProQ/FINO family; Region: ProQ; smart00945 262727002380 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 262727002381 KOW motif; Region: KOW; pfam00467 262727002382 carboxy-terminal protease; Provisional; Region: PRK11186 262727002383 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 262727002384 protein binding site [polypeptide binding]; other site 262727002385 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 262727002386 Catalytic dyad [active] 262727002387 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 262727002388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 262727002389 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 262727002390 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 262727002391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 262727002392 Peptidase M15; Region: Peptidase_M15_3; cl01194 262727002393 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 262727002394 active site 262727002395 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 262727002396 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 262727002397 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 262727002398 TPP-binding site [chemical binding]; other site 262727002399 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 262727002400 PYR/PP interface [polypeptide binding]; other site 262727002401 dimer interface [polypeptide binding]; other site 262727002402 TPP binding site [chemical binding]; other site 262727002403 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 262727002404 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 262727002405 E3 interaction surface; other site 262727002406 lipoyl attachment site [posttranslational modification]; other site 262727002407 e3 binding domain; Region: E3_binding; pfam02817 262727002408 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 262727002409 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 262727002410 dimer interface [polypeptide binding]; other site 262727002411 putative radical transfer pathway; other site 262727002412 diiron center [ion binding]; other site 262727002413 tyrosyl radical; other site 262727002414 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 262727002415 ATP cone domain; Region: ATP-cone; pfam03477 262727002416 Class I ribonucleotide reductase; Region: RNR_I; cd01679 262727002417 active site 262727002418 dimer interface [polypeptide binding]; other site 262727002419 catalytic residues [active] 262727002420 effector binding site; other site 262727002421 R2 peptide binding site; other site 262727002422 outer membrane lipoprotein; Provisional; Region: PRK11023 262727002423 BON domain; Region: BON; pfam04972 262727002424 BON domain; Region: BON; cl02771 262727002425 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 262727002426 dimer interface [polypeptide binding]; other site 262727002427 active site 262727002428 TIGR00252 family protein; Region: TIGR00252 262727002429 LppC putative lipoprotein; Region: LppC; pfam04348 262727002430 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 262727002431 putative ligand binding site [chemical binding]; other site 262727002432 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 262727002433 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 262727002434 putative SAM binding site [chemical binding]; other site 262727002435 putative homodimer interface [polypeptide binding]; other site 262727002436 protease TldD; Provisional; Region: tldD; PRK10735 262727002437 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 262727002438 NlpC/P60 family; Region: NLPC_P60; pfam00877 262727002439 D-lactate dehydrogenase; Provisional; Region: PRK11183 262727002440 FAD binding domain; Region: FAD_binding_4; pfam01565 262727002441 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 262727002442 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 262727002443 predicted active site [active] 262727002444 catalytic triad [active] 262727002445 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 262727002446 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 262727002447 active site 262727002448 multimer interface [polypeptide binding]; other site 262727002449 cytidylate kinase; Provisional; Region: cmk; PRK00023 262727002450 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 262727002451 CMP-binding site; other site 262727002452 The sites determining sugar specificity; other site 262727002453 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 262727002454 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 262727002455 RNA binding site [nucleotide binding]; other site 262727002456 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 262727002457 RNA binding site [nucleotide binding]; other site 262727002458 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 262727002459 RNA binding site [nucleotide binding]; other site 262727002460 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 262727002461 RNA binding site [nucleotide binding]; other site 262727002462 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 262727002463 RNA binding site [nucleotide binding]; other site 262727002464 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 262727002465 RNA binding site [nucleotide binding]; other site 262727002466 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 262727002467 IHF dimer interface [polypeptide binding]; other site 262727002468 IHF - DNA interface [nucleotide binding]; other site 262727002469 Predicted membrane protein [Function unknown]; Region: COG3771 262727002470 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 262727002471 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 262727002472 binding surface 262727002473 TPR motif; other site 262727002474 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262727002475 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 262727002476 active site 262727002477 dimer interface [polypeptide binding]; other site 262727002478 translation initiation factor Sui1; Validated; Region: PRK06824 262727002479 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 262727002480 putative rRNA binding site [nucleotide binding]; other site 262727002481 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 262727002482 DNA replication initiation factor; Validated; Region: PRK06893 262727002483 uracil-xanthine permease; Region: ncs2; TIGR00801 262727002484 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 262727002485 active site 262727002486 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 262727002487 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 262727002488 Walker A motif; other site 262727002489 ATP binding site [chemical binding]; other site 262727002490 Walker B motif; other site 262727002491 DNA polymerase III subunit delta'; Validated; Region: PRK08485 262727002492 arginine finger; other site 262727002493 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 262727002494 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 262727002495 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 262727002496 active site 262727002497 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 262727002498 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 262727002499 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 262727002500 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 262727002501 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 262727002502 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 262727002503 E3 interaction surface; other site 262727002504 lipoyl attachment site [posttranslational modification]; other site 262727002505 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 262727002506 E3 interaction surface; other site 262727002507 lipoyl attachment site [posttranslational modification]; other site 262727002508 e3 binding domain; Region: E3_binding; pfam02817 262727002509 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 262727002510 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 262727002511 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 262727002512 dimer interface [polypeptide binding]; other site 262727002513 TPP-binding site [chemical binding]; other site 262727002514 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 262727002515 active site 262727002516 dimer interfaces [polypeptide binding]; other site 262727002517 catalytic residues [active] 262727002518 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 262727002519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 262727002520 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 262727002521 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 262727002522 nucleotide binding site [chemical binding]; other site 262727002523 chaperone protein DnaJ; Provisional; Region: PRK10767 262727002524 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 262727002525 HSP70 interaction site [polypeptide binding]; other site 262727002526 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 262727002527 substrate binding site [polypeptide binding]; other site 262727002528 dimer interface [polypeptide binding]; other site 262727002529 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 262727002530 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 262727002531 putative catalytic cysteine [active] 262727002532 Predicted membrane protein [Function unknown]; Region: COG2860 262727002533 UPF0126 domain; Region: UPF0126; pfam03458 262727002534 UPF0126 domain; Region: UPF0126; pfam03458 262727002535 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 262727002536 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 262727002537 putative substrate translocation pore; other site 262727002538 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 262727002539 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 262727002540 RNA binding surface [nucleotide binding]; other site 262727002541 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 262727002542 active site 262727002543 uracil binding [chemical binding]; other site 262727002544 Exopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3955 262727002545 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 262727002546 Malic enzyme, N-terminal domain; Region: malic; pfam00390 262727002547 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 262727002548 putative NAD(P) binding site [chemical binding]; other site 262727002549 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 262727002550 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 262727002551 Sulfatase; Region: Sulfatase; pfam00884 262727002552 excinuclease ABC subunit B; Provisional; Region: PRK05298 262727002553 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 262727002554 ATP binding site [chemical binding]; other site 262727002555 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 262727002556 nucleotide binding region [chemical binding]; other site 262727002557 ATP-binding site [chemical binding]; other site 262727002558 Ultra-violet resistance protein B; Region: UvrB; pfam12344 262727002559 UvrB/uvrC motif; Region: UVR; pfam02151 262727002560 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 262727002561 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 262727002562 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 262727002563 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 262727002564 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 262727002565 non-specific DNA binding site [nucleotide binding]; other site 262727002566 salt bridge; other site 262727002567 sequence-specific DNA binding site [nucleotide binding]; other site 262727002568 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 262727002569 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 262727002570 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 262727002571 ABC transporter; Region: ABC_tran_2; pfam12848 262727002572 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 262727002573 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 262727002574 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 262727002575 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 262727002576 Helicase; Region: Helicase_RecD; pfam05127 262727002577 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 262727002578 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 262727002579 transcription-repair coupling factor; Provisional; Region: PRK10689 262727002580 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 262727002581 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 262727002582 ATP binding site [chemical binding]; other site 262727002583 putative Mg++ binding site [ion binding]; other site 262727002584 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 262727002585 nucleotide binding region [chemical binding]; other site 262727002586 ATP-binding site [chemical binding]; other site 262727002587 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 262727002588 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 262727002589 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 262727002590 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 262727002591 protein binding site [polypeptide binding]; other site 262727002592 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 262727002593 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 262727002594 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 262727002595 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 262727002596 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 262727002597 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 262727002598 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 262727002599 putative active site [active] 262727002600 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 262727002601 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 262727002602 DNA gyrase subunit A; Validated; Region: PRK05560 262727002603 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 262727002604 CAP-like domain; other site 262727002605 active site 262727002606 primary dimer interface [polypeptide binding]; other site 262727002607 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262727002608 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262727002609 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262727002610 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262727002611 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262727002612 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262727002613 uncharacterized domain; Region: TIGR00702 262727002614 YcaO-like family; Region: YcaO; pfam02624 262727002615 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 262727002616 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 262727002617 Walker A/P-loop; other site 262727002618 ATP binding site [chemical binding]; other site 262727002619 Q-loop/lid; other site 262727002620 ABC transporter signature motif; other site 262727002621 Walker B; other site 262727002622 D-loop; other site 262727002623 H-loop/switch region; other site 262727002624 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 262727002625 S-adenosylmethionine binding site [chemical binding]; other site 262727002626 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 262727002627 tellurite resistance protein TehB; Provisional; Region: PRK12335 262727002628 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 262727002629 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 262727002630 S-adenosylmethionine binding site [chemical binding]; other site 262727002631 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 262727002632 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 262727002633 active site 262727002634 HIGH motif; other site 262727002635 KMSKS motif; other site 262727002636 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 262727002637 tRNA binding surface [nucleotide binding]; other site 262727002638 anticodon binding site; other site 262727002639 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 262727002640 dimer interface [polypeptide binding]; other site 262727002641 putative tRNA-binding site [nucleotide binding]; other site 262727002642 antiporter inner membrane protein; Provisional; Region: PRK11670 262727002643 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 262727002644 Walker A motif; other site 262727002645 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 262727002646 dimer interface [polypeptide binding]; other site 262727002647 FMN binding site [chemical binding]; other site 262727002648 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 262727002649 ligand binding site; other site 262727002650 tetramer interface; other site 262727002651 ribosome maturation protein RimP; Reviewed; Region: PRK00092 262727002652 Sm and related proteins; Region: Sm_like; cl00259 262727002653 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 262727002654 putative oligomer interface [polypeptide binding]; other site 262727002655 putative RNA binding site [nucleotide binding]; other site 262727002656 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 262727002657 NusA N-terminal domain; Region: NusA_N; pfam08529 262727002658 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 262727002659 RNA binding site [nucleotide binding]; other site 262727002660 homodimer interface [polypeptide binding]; other site 262727002661 NusA-like KH domain; Region: KH_5; pfam13184 262727002662 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 262727002663 G-X-X-G motif; other site 262727002664 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 262727002665 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 262727002666 translation initiation factor IF-2; Region: IF-2; TIGR00487 262727002667 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 262727002668 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 262727002669 G1 box; other site 262727002670 putative GEF interaction site [polypeptide binding]; other site 262727002671 GTP/Mg2+ binding site [chemical binding]; other site 262727002672 Switch I region; other site 262727002673 G2 box; other site 262727002674 G3 box; other site 262727002675 Switch II region; other site 262727002676 G4 box; other site 262727002677 G5 box; other site 262727002678 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 262727002679 Translation-initiation factor 2; Region: IF-2; pfam11987 262727002680 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 262727002681 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 262727002682 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 262727002683 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 262727002684 ATP binding site [chemical binding]; other site 262727002685 putative Mg++ binding site [ion binding]; other site 262727002686 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 262727002687 SIR2-like domain; Region: SIR2_2; pfam13289 262727002688 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 262727002689 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 262727002690 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 262727002691 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 262727002692 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 262727002693 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 262727002694 RNA binding site [nucleotide binding]; other site 262727002695 active site 262727002696 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 262727002697 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 262727002698 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 262727002699 prephenate dehydrogenase; Validated; Region: PRK08507 262727002700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 262727002701 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 262727002702 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 262727002703 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]; Region: COG5595 262727002704 Fe-S metabolism associated domain; Region: SufE; pfam02657 262727002705 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 262727002706 Aminotransferase class-V; Region: Aminotran_5; pfam00266 262727002707 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 262727002708 catalytic residue [active] 262727002709 Staphylococcal nuclease homologues; Region: SNc; smart00318 262727002710 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 262727002711 Catalytic site; other site 262727002712 hypothetical protein; Provisional; Region: PRK01821 262727002713 LrgB-like family; Region: LrgB; cl00596 262727002714 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 262727002715 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 262727002716 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 262727002717 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 262727002718 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 262727002719 dimer interface [polypeptide binding]; other site 262727002720 conserved gate region; other site 262727002721 ABC-ATPase subunit interface; other site 262727002722 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 262727002723 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 262727002724 dimer interface [polypeptide binding]; other site 262727002725 conserved gate region; other site 262727002726 putative PBP binding loops; other site 262727002727 ABC-ATPase subunit interface; other site 262727002728 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 262727002729 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 262727002730 Walker A/P-loop; other site 262727002731 ATP binding site [chemical binding]; other site 262727002732 Q-loop/lid; other site 262727002733 ABC transporter signature motif; other site 262727002734 Walker B; other site 262727002735 D-loop; other site 262727002736 H-loop/switch region; other site 262727002737 TOBE domain; Region: TOBE_2; pfam08402 262727002738 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 262727002739 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 262727002740 metal binding site [ion binding]; metal-binding site 262727002741 dimer interface [polypeptide binding]; other site 262727002742 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 262727002743 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 262727002744 dimerization interface [polypeptide binding]; other site 262727002745 DPS ferroxidase diiron center [ion binding]; other site 262727002746 ion pore; other site 262727002747 cytidine deaminase; Provisional; Region: PRK09027 262727002748 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 262727002749 active site 262727002750 catalytic motif [active] 262727002751 Zn binding site [ion binding]; other site 262727002752 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 262727002753 active site 262727002754 catalytic motif [active] 262727002755 Zn binding site [ion binding]; other site 262727002756 Methyltransferase domain; Region: Methyltransf_23; pfam13489 262727002757 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 262727002758 S-adenosylmethionine binding site [chemical binding]; other site 262727002759 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 262727002760 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 262727002761 Na binding site [ion binding]; other site 262727002762 ribonuclease G; Provisional; Region: PRK11712 262727002763 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 262727002764 homodimer interface [polypeptide binding]; other site 262727002765 oligonucleotide binding site [chemical binding]; other site 262727002766 potential frameshift: common BLAST hit: gi|319897010|ref|YP_004135205.1| trimeric autotransporter adhesin 262727002767 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 262727002768 trimer interface [polypeptide binding]; other site 262727002769 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 262727002770 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 262727002771 active site 262727002772 HIGH motif; other site 262727002773 nucleotide binding site [chemical binding]; other site 262727002774 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 262727002775 KMSKS motif; other site 262727002776 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 262727002777 Uncharacterized conserved protein [Function unknown]; Region: COG2983 262727002778 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 262727002779 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 262727002780 glycogen branching enzyme; Provisional; Region: PRK05402 262727002781 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 262727002782 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 262727002783 active site 262727002784 catalytic site [active] 262727002785 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 262727002786 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 262727002787 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 262727002788 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 262727002789 active site 262727002790 catalytic site [active] 262727002791 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 262727002792 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 262727002793 ligand binding site; other site 262727002794 oligomer interface; other site 262727002795 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 262727002796 dimer interface [polypeptide binding]; other site 262727002797 N-terminal domain interface [polypeptide binding]; other site 262727002798 sulfate 1 binding site; other site 262727002799 glycogen synthase; Provisional; Region: glgA; PRK00654 262727002800 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 262727002801 ADP-binding pocket [chemical binding]; other site 262727002802 homodimer interface [polypeptide binding]; other site 262727002803 glycogen phosphorylase; Provisional; Region: PRK14986 262727002804 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 262727002805 homodimer interface [polypeptide binding]; other site 262727002806 active site pocket [active] 262727002807 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 262727002808 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 262727002809 ligand binding site [chemical binding]; other site 262727002810 homodimer interface [polypeptide binding]; other site 262727002811 NAD(P) binding site [chemical binding]; other site 262727002812 trimer interface B [polypeptide binding]; other site 262727002813 trimer interface A [polypeptide binding]; other site 262727002814 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 262727002815 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 262727002816 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 262727002817 Transcriptional regulator [Transcription]; Region: LysR; COG0583 262727002818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 262727002819 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 262727002820 putative effector binding pocket; other site 262727002821 dimerization interface [polypeptide binding]; other site 262727002822 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 262727002823 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 262727002824 active site 262727002825 interdomain interaction site; other site 262727002826 putative metal-binding site [ion binding]; other site 262727002827 nucleotide binding site [chemical binding]; other site 262727002828 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 262727002829 domain I; other site 262727002830 DNA binding groove [nucleotide binding] 262727002831 phosphate binding site [ion binding]; other site 262727002832 domain II; other site 262727002833 domain III; other site 262727002834 nucleotide binding site [chemical binding]; other site 262727002835 catalytic site [active] 262727002836 domain IV; other site 262727002837 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 262727002838 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 262727002839 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 262727002840 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 262727002841 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 262727002842 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 262727002843 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 262727002844 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 262727002845 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 262727002846 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 262727002847 active site 262727002848 dimer interface [polypeptide binding]; other site 262727002849 motif 1; other site 262727002850 motif 2; other site 262727002851 motif 3; other site 262727002852 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 262727002853 anticodon binding site; other site 262727002854 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 262727002855 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 262727002856 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 262727002857 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 262727002858 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 262727002859 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 262727002860 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 262727002861 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 262727002862 molybdenum-pterin binding domain; Region: Mop; TIGR00638 262727002863 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 262727002864 DsrC like protein; Region: DsrC; pfam04358 262727002865 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 262727002866 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 262727002867 Ligand Binding Site [chemical binding]; other site 262727002868 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukF; COG3006 262727002869 condesin subunit E; Provisional; Region: PRK05256 262727002870 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 262727002871 P-loop containing region of AAA domain; Region: AAA_29; cl17516 262727002872 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 262727002873 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 262727002874 Uncharacterized conserved protein [Function unknown]; Region: COG3586 262727002875 exonuclease I; Provisional; Region: sbcB; PRK11779 262727002876 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 262727002877 active site 262727002878 catalytic site [active] 262727002879 substrate binding site [chemical binding]; other site 262727002880 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 262727002881 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 262727002882 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 262727002883 putative active site [active] 262727002884 heme pocket [chemical binding]; other site 262727002885 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 262727002886 dimer interface [polypeptide binding]; other site 262727002887 phosphorylation site [posttranslational modification] 262727002888 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 262727002889 ATP binding site [chemical binding]; other site 262727002890 Mg2+ binding site [ion binding]; other site 262727002891 G-X-G motif; other site 262727002892 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 262727002893 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 262727002894 active site 262727002895 phosphorylation site [posttranslational modification] 262727002896 intermolecular recognition site; other site 262727002897 dimerization interface [polypeptide binding]; other site 262727002898 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 262727002899 DNA binding site [nucleotide binding] 262727002900 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 262727002901 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 262727002902 Walker A/P-loop; other site 262727002903 ATP binding site [chemical binding]; other site 262727002904 Q-loop/lid; other site 262727002905 ABC transporter signature motif; other site 262727002906 Walker B; other site 262727002907 D-loop; other site 262727002908 H-loop/switch region; other site 262727002909 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 262727002910 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 262727002911 dimer interface [polypeptide binding]; other site 262727002912 conserved gate region; other site 262727002913 putative PBP binding loops; other site 262727002914 ABC-ATPase subunit interface; other site 262727002915 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 262727002916 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 262727002917 dimer interface [polypeptide binding]; other site 262727002918 conserved gate region; other site 262727002919 putative PBP binding loops; other site 262727002920 ABC-ATPase subunit interface; other site 262727002921 PBP superfamily domain; Region: PBP_like_2; cl17296 262727002922 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 262727002923 Ferritin-like domain; Region: Ferritin; pfam00210 262727002924 ferroxidase diiron center [ion binding]; other site 262727002925 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 262727002926 Ferritin-like domain; Region: Ferritin; pfam00210 262727002927 ferroxidase diiron center [ion binding]; other site 262727002928 anthranilate synthase component I; Provisional; Region: PRK13564 262727002929 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 262727002930 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 262727002931 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 262727002932 Glutamine amidotransferase class-I; Region: GATase; pfam00117 262727002933 glutamine binding [chemical binding]; other site 262727002934 catalytic triad [active] 262727002935 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 262727002936 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 262727002937 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 262727002938 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 262727002939 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 262727002940 active site 262727002941 ribulose/triose binding site [chemical binding]; other site 262727002942 phosphate binding site [ion binding]; other site 262727002943 substrate (anthranilate) binding pocket [chemical binding]; other site 262727002944 product (indole) binding pocket [chemical binding]; other site 262727002945 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 262727002946 active site 262727002947 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 262727002948 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 262727002949 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 262727002950 HIGH motif; other site 262727002951 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 262727002952 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 262727002953 active site 262727002954 KMSKS motif; other site 262727002955 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 262727002956 tRNA binding surface [nucleotide binding]; other site 262727002957 anticodon binding site; other site 262727002958 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 262727002959 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 262727002960 putative active site [active] 262727002961 catalytic site [active] 262727002962 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 262727002963 Zeta toxin; Region: Zeta_toxin; pfam06414 262727002964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 262727002965 DNA polymerase III subunit chi; Validated; Region: PRK05728 262727002966 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 262727002967 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 262727002968 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 262727002969 Ligand binding site; other site 262727002970 metal-binding site 262727002971 fumarate hydratase; Reviewed; Region: fumC; PRK00485 262727002972 Class II fumarases; Region: Fumarase_classII; cd01362 262727002973 active site 262727002974 tetramer interface [polypeptide binding]; other site 262727002975 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 262727002976 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 262727002977 active site 262727002978 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 262727002979 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 262727002980 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 262727002981 quinone interaction residues [chemical binding]; other site 262727002982 active site 262727002983 catalytic residues [active] 262727002984 FMN binding site [chemical binding]; other site 262727002985 substrate binding site [chemical binding]; other site 262727002986 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 262727002987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 262727002988 YcfA-like protein; Region: YcfA; pfam07927 262727002989 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 262727002990 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 262727002991 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 262727002992 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 262727002993 non-specific DNA binding site [nucleotide binding]; other site 262727002994 salt bridge; other site 262727002995 sequence-specific DNA binding site [nucleotide binding]; other site 262727002996 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 262727002997 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 262727002998 non-specific DNA binding site [nucleotide binding]; other site 262727002999 salt bridge; other site 262727003000 sequence-specific DNA binding site [nucleotide binding]; other site 262727003001 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 262727003002 Catalytic site [active] 262727003003 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 262727003004 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 262727003005 AntA/AntB antirepressor; Region: AntA; pfam08346 262727003006 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 262727003007 catalytic residues [active] 262727003008 Int/Topo IB signature motif; other site 262727003009 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 262727003010 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 262727003011 ligand binding site [chemical binding]; other site 262727003012 flexible hinge region; other site 262727003013 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 262727003014 putative switch regulator; other site 262727003015 non-specific DNA interactions [nucleotide binding]; other site 262727003016 DNA binding site [nucleotide binding] 262727003017 sequence specific DNA binding site [nucleotide binding]; other site 262727003018 putative cAMP binding site [chemical binding]; other site 262727003019 universal stress protein UspE; Provisional; Region: PRK11175 262727003020 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 262727003021 Ligand Binding Site [chemical binding]; other site 262727003022 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 262727003023 Ligand Binding Site [chemical binding]; other site 262727003024 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 262727003025 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 262727003026 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 262727003027 active site 262727003028 substrate binding site [chemical binding]; other site 262727003029 cosubstrate binding site; other site 262727003030 catalytic site [active] 262727003031 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 262727003032 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 262727003033 dimerization interface [polypeptide binding]; other site 262727003034 putative ATP binding site [chemical binding]; other site 262727003035 malonic semialdehyde reductase; Provisional; Region: PRK10538 262727003036 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 262727003037 putative NAD(P) binding site [chemical binding]; other site 262727003038 homotetramer interface [polypeptide binding]; other site 262727003039 homodimer interface [polypeptide binding]; other site 262727003040 active site 262727003041 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 262727003042 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 262727003043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727003044 catalytic residue [active] 262727003045 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 262727003046 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 262727003047 substrate binding site [chemical binding]; other site 262727003048 active site 262727003049 catalytic residues [active] 262727003050 heterodimer interface [polypeptide binding]; other site 262727003051 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 262727003052 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 262727003053 putative deacylase active site [active] 262727003054 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 262727003055 DNA-binding site [nucleotide binding]; DNA binding site 262727003056 RNA-binding motif; other site 262727003057 Uncharacterized protein family (UPF0181); Region: UPF0181; pfam03701 262727003058 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 262727003059 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 262727003060 probable active site [active] 262727003061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 262727003062 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 262727003063 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 262727003064 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 262727003065 Ligand Binding Site [chemical binding]; other site 262727003066 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 262727003067 active site residue [active] 262727003068 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 262727003069 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 262727003070 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 262727003071 substrate binding pocket [chemical binding]; other site 262727003072 chain length determination region; other site 262727003073 substrate-Mg2+ binding site; other site 262727003074 catalytic residues [active] 262727003075 aspartate-rich region 1; other site 262727003076 active site lid residues [active] 262727003077 aspartate-rich region 2; other site 262727003078 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 262727003079 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 262727003080 TPP-binding site; other site 262727003081 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 262727003082 PYR/PP interface [polypeptide binding]; other site 262727003083 dimer interface [polypeptide binding]; other site 262727003084 TPP binding site [chemical binding]; other site 262727003085 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 262727003086 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 262727003087 stringent starvation protein A; Provisional; Region: sspA; PRK09481 262727003088 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 262727003089 C-terminal domain interface [polypeptide binding]; other site 262727003090 putative GSH binding site (G-site) [chemical binding]; other site 262727003091 dimer interface [polypeptide binding]; other site 262727003092 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 262727003093 dimer interface [polypeptide binding]; other site 262727003094 N-terminal domain interface [polypeptide binding]; other site 262727003095 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 262727003096 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 262727003097 23S rRNA interface [nucleotide binding]; other site 262727003098 L3 interface [polypeptide binding]; other site 262727003099 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 262727003100 FAD binding site [chemical binding]; other site 262727003101 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 262727003102 AAA domain; Region: AAA_26; pfam13500 262727003103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 262727003104 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 262727003105 homodecamer interface [polypeptide binding]; other site 262727003106 GTP cyclohydrolase I; Provisional; Region: PLN03044 262727003107 active site 262727003108 putative catalytic site residues [active] 262727003109 zinc binding site [ion binding]; other site 262727003110 GTP-CH-I/GFRP interaction surface; other site 262727003111 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 262727003112 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 262727003113 dimer interface [polypeptide binding]; other site 262727003114 putative functional site; other site 262727003115 putative MPT binding site; other site 262727003116 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 262727003117 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 262727003118 ATP binding site [chemical binding]; other site 262727003119 substrate interface [chemical binding]; other site 262727003120 dsDNA-mimic protein; Reviewed; Region: PRK05094 262727003121 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 262727003122 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 262727003123 catalytic residues [active] 262727003124 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 262727003125 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 262727003126 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 262727003127 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 262727003128 SelR domain; Region: SelR; pfam01641 262727003129 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 262727003130 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 262727003131 EamA-like transporter family; Region: EamA; cl17759 262727003132 Putative zinc-finger; Region: zf-HC2; pfam13490 262727003133 RNA polymerase sigma factor; Provisional; Region: PRK12530 262727003134 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262727003135 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 262727003136 DNA binding residues [nucleotide binding] 262727003137 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 262727003138 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 262727003139 catalytic core [active] 262727003140 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 262727003141 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 262727003142 active site 262727003143 substrate binding site [chemical binding]; other site 262727003144 metal binding site [ion binding]; metal-binding site 262727003145 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 262727003146 dihydropteroate synthase; Region: DHPS; TIGR01496 262727003147 substrate binding pocket [chemical binding]; other site 262727003148 dimer interface [polypeptide binding]; other site 262727003149 inhibitor binding site; inhibition site 262727003150 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 262727003151 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 262727003152 Walker A motif; other site 262727003153 ATP binding site [chemical binding]; other site 262727003154 Walker B motif; other site 262727003155 arginine finger; other site 262727003156 Peptidase family M41; Region: Peptidase_M41; pfam01434 262727003157 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 262727003158 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 262727003159 S-adenosylmethionine binding site [chemical binding]; other site 262727003160 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 262727003161 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 262727003162 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 262727003163 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 262727003164 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 262727003165 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 262727003166 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 262727003167 16S/18S rRNA binding site [nucleotide binding]; other site 262727003168 S13e-L30e interaction site [polypeptide binding]; other site 262727003169 25S rRNA binding site [nucleotide binding]; other site 262727003170 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 262727003171 ATP binding site [chemical binding]; other site 262727003172 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 262727003173 active site 1 [active] 262727003174 dimer interface [polypeptide binding]; other site 262727003175 active site 2 [active] 262727003176 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 262727003177 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 262727003178 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 262727003179 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 262727003180 AAA domain; Region: AAA_30; pfam13604 262727003181 Family description; Region: UvrD_C_2; pfam13538 262727003182 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 262727003183 Family description; Region: UvrD_C_2; pfam13538 262727003184 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 262727003185 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 262727003186 23S rRNA binding site [nucleotide binding]; other site 262727003187 L21 binding site [polypeptide binding]; other site 262727003188 L13 binding site [polypeptide binding]; other site 262727003189 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 262727003190 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 262727003191 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 262727003192 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 262727003193 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 262727003194 active site 262727003195 phosphate binding residues; other site 262727003196 catalytic residues [active] 262727003197 Sulfatase; Region: Sulfatase; cl17466 262727003198 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 262727003199 Restriction endonuclease; Region: Mrr_cat; pfam04471 262727003200 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 262727003201 active site 262727003202 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 262727003203 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 262727003204 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 262727003205 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 262727003206 Fic/DOC family; Region: Fic; pfam02661 262727003207 Fic/DOC family; Region: Fic; cl00960 262727003208 Opioid growth factor receptor (OGFr) conserved region; Region: OGFr_N; pfam04664 262727003209 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 262727003210 NAD-dependent deacetylase; Provisional; Region: PRK00481 262727003211 NAD+ binding site [chemical binding]; other site 262727003212 substrate binding site [chemical binding]; other site 262727003213 Zn binding site [ion binding]; other site 262727003214 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 262727003215 Predicted transcriptional regulator [Transcription]; Region: COG2378 262727003216 WYL domain; Region: WYL; pfam13280 262727003217 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 262727003218 NlpC/P60 family; Region: NLPC_P60; pfam00877 262727003219 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 262727003220 IHF dimer interface [polypeptide binding]; other site 262727003221 IHF - DNA interface [nucleotide binding]; other site 262727003222 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 262727003223 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 262727003224 putative tRNA-binding site [nucleotide binding]; other site 262727003225 B3/4 domain; Region: B3_4; pfam03483 262727003226 tRNA synthetase B5 domain; Region: B5; smart00874 262727003227 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 262727003228 dimer interface [polypeptide binding]; other site 262727003229 motif 1; other site 262727003230 motif 3; other site 262727003231 motif 2; other site 262727003232 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 262727003233 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 262727003234 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 262727003235 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 262727003236 dimer interface [polypeptide binding]; other site 262727003237 motif 1; other site 262727003238 active site 262727003239 motif 2; other site 262727003240 motif 3; other site 262727003241 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 262727003242 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 262727003243 catalytic loop [active] 262727003244 iron binding site [ion binding]; other site 262727003245 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 262727003246 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 262727003247 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 262727003248 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 262727003249 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 262727003250 tetramer interfaces [polypeptide binding]; other site 262727003251 binuclear metal-binding site [ion binding]; other site 262727003252 thiamine-monophosphate kinase; Region: thiL; TIGR01379 262727003253 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 262727003254 ATP binding site [chemical binding]; other site 262727003255 dimerization interface [polypeptide binding]; other site 262727003256 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 262727003257 putative RNA binding site [nucleotide binding]; other site 262727003258 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 262727003259 homopentamer interface [polypeptide binding]; other site 262727003260 active site 262727003261 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 262727003262 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 262727003263 putative anticodon binding site; other site 262727003264 putative dimer interface [polypeptide binding]; other site 262727003265 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 262727003266 homodimer interface [polypeptide binding]; other site 262727003267 motif 1; other site 262727003268 motif 2; other site 262727003269 active site 262727003270 motif 3; other site 262727003271 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 262727003272 active site clefts [active] 262727003273 zinc binding site [ion binding]; other site 262727003274 dimer interface [polypeptide binding]; other site 262727003275 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 262727003276 Aminotransferase class-V; Region: Aminotran_5; pfam00266 262727003277 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 262727003278 catalytic residue [active] 262727003279 Fe-S metabolism associated domain; Region: SufE; pfam02657 262727003280 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]; Region: COG5595 262727003281 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 262727003282 arginine finger; other site 262727003283 Peptidase family M41; Region: Peptidase_M41; pfam01434 262727003284 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 262727003285 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 262727003286 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 262727003287 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 262727003288 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 262727003289 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 262727003290 16S/18S rRNA binding site [nucleotide binding]; other site 262727003291 S13e-L30e interaction site [polypeptide binding]; other site 262727003292 25S rRNA binding site [nucleotide binding]; other site 262727003293 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 262727003294 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 262727003295 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 262727003296 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 262727003297 ABC-ATPase subunit interface; other site 262727003298 dimer interface [polypeptide binding]; other site 262727003299 putative PBP binding regions; other site 262727003300 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 262727003301 putative ligand binding residues [chemical binding]; other site 262727003302 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 262727003303 molybdenum transport protein ModD; Provisional; Region: PRK06096 262727003304 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 262727003305 dimerization interface [polypeptide binding]; other site 262727003306 active site 262727003307 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 262727003308 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 262727003309 dimer interface [polypeptide binding]; other site 262727003310 conserved gate region; other site 262727003311 putative PBP binding loops; other site 262727003312 ABC-ATPase subunit interface; other site 262727003313 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 262727003314 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 262727003315 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 262727003316 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 262727003317 putative ribose interaction site [chemical binding]; other site 262727003318 putative ADP binding site [chemical binding]; other site 262727003319 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 262727003320 active site 262727003321 nucleotide binding site [chemical binding]; other site 262727003322 HIGH motif; other site 262727003323 KMSKS motif; other site 262727003324 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 262727003325 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 262727003326 putative acyl-acceptor binding pocket; other site 262727003327 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 262727003328 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 262727003329 ATP binding site [chemical binding]; other site 262727003330 Mg2+ binding site [ion binding]; other site 262727003331 G-X-G motif; other site 262727003332 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 262727003333 anchoring element; other site 262727003334 dimer interface [polypeptide binding]; other site 262727003335 ATP binding site [chemical binding]; other site 262727003336 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 262727003337 active site 262727003338 putative metal-binding site [ion binding]; other site 262727003339 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 262727003340 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 262727003341 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 262727003342 CAP-like domain; other site 262727003343 active site 262727003344 primary dimer interface [polypeptide binding]; other site 262727003345 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262727003346 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 262727003347 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 262727003348 RimK-like ATP-grasp domain; Region: RimK; pfam08443 262727003349 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 262727003350 GSH binding site [chemical binding]; other site 262727003351 catalytic residues [active] 262727003352 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 262727003353 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 262727003354 dimer interface [polypeptide binding]; other site 262727003355 active site 262727003356 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 262727003357 Uncharacterized conserved protein [Function unknown]; Region: COG4121 262727003358 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 262727003359 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 262727003360 active site 262727003361 ATP binding site [chemical binding]; other site 262727003362 Phosphotransferase enzyme family; Region: APH; pfam01636 262727003363 substrate binding site [chemical binding]; other site 262727003364 dimer interface [polypeptide binding]; other site 262727003365 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 262727003366 EamA-like transporter family; Region: EamA; pfam00892 262727003367 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 262727003368 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 262727003369 active site 262727003370 metal-binding site 262727003371 LicD family; Region: LicD; cl01378 262727003372 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 262727003373 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 262727003374 active site 262727003375 metal-binding site 262727003376 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 262727003377 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 262727003378 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 262727003379 tandem repeat interface [polypeptide binding]; other site 262727003380 oligomer interface [polypeptide binding]; other site 262727003381 active site residues [active] 262727003382 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 262727003383 tandem repeat interface [polypeptide binding]; other site 262727003384 oligomer interface [polypeptide binding]; other site 262727003385 active site residues [active] 262727003386 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 262727003387 putative FMN binding site [chemical binding]; other site 262727003388 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 262727003389 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 262727003390 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 262727003391 serine/threonine transporter SstT; Provisional; Region: PRK13628 262727003392 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 262727003393 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 262727003394 Peptidase S24-like; Region: Peptidase_S24; pfam00717 262727003395 Catalytic site [active] 262727003396 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 262727003397 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 262727003398 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 262727003399 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 262727003400 FtsX-like permease family; Region: FtsX; pfam02687 262727003401 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 262727003402 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 262727003403 Walker A/P-loop; other site 262727003404 ATP binding site [chemical binding]; other site 262727003405 Q-loop/lid; other site 262727003406 ABC transporter signature motif; other site 262727003407 Walker B; other site 262727003408 D-loop; other site 262727003409 H-loop/switch region; other site 262727003410 AAA domain; Region: AAA_26; pfam13500 262727003411 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 262727003412 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 262727003413 Methyltransferase domain; Region: Methyltransf_11; pfam08241 262727003414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2830 262727003415 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 262727003416 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 262727003417 substrate-cofactor binding pocket; other site 262727003418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727003419 catalytic residue [active] 262727003420 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 262727003421 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 262727003422 inhibitor-cofactor binding pocket; inhibition site 262727003423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727003424 catalytic residue [active] 262727003425 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 262727003426 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 262727003427 FtsX-like permease family; Region: FtsX; pfam02687 262727003428 glycerate dehydrogenase; Provisional; Region: PRK06932 262727003429 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 262727003430 putative ligand binding site [chemical binding]; other site 262727003431 putative NAD binding site [chemical binding]; other site 262727003432 catalytic site [active] 262727003433 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 262727003434 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 262727003435 Uncharacterized conserved protein [Function unknown]; Region: COG2912 262727003436 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 262727003437 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 262727003438 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 262727003439 RDD family; Region: RDD; pfam06271 262727003440 peptide chain release factor 1; Validated; Region: prfA; PRK00591 262727003441 This domain is found in peptide chain release factors; Region: PCRF; smart00937 262727003442 RF-1 domain; Region: RF-1; pfam00472 262727003443 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 262727003444 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 262727003445 Sel1-like repeats; Region: SEL1; smart00671 262727003446 Sel1-like repeats; Region: SEL1; smart00671 262727003447 Sel1-like repeats; Region: SEL1; smart00671 262727003448 Sel1-like repeats; Region: SEL1; smart00671 262727003449 Sel1 repeat; Region: Sel1; cl02723 262727003450 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 262727003451 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 262727003452 Sel1-like repeats; Region: SEL1; smart00671 262727003453 Sel1-like repeats; Region: SEL1; smart00671 262727003454 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 262727003455 binding surface 262727003456 TPR motif; other site 262727003457 Sel1-like repeats; Region: SEL1; smart00671 262727003458 Sel1-like repeats; Region: SEL1; smart00671 262727003459 Sel1-like repeats; Region: SEL1; smart00671 262727003460 Protein of unknown function, DUF462; Region: DUF462; cl01190 262727003461 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 262727003462 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 262727003463 Protein of unknown function (DUF935); Region: DUF935; pfam06074 262727003464 pyruvate kinase; Provisional; Region: PRK05826 262727003465 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; cd00288 262727003466 domain interfaces; other site 262727003467 active site 262727003468 replicative DNA helicase; Validated; Region: PRK06904 262727003469 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 262727003470 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 262727003471 Walker A motif; other site 262727003472 ATP binding site [chemical binding]; other site 262727003473 Walker B motif; other site 262727003474 DNA binding loops [nucleotide binding] 262727003475 alanine racemase; Reviewed; Region: alr; PRK00053 262727003476 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 262727003477 active site 262727003478 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 262727003479 substrate binding site [chemical binding]; other site 262727003480 catalytic residues [active] 262727003481 dimer interface [polypeptide binding]; other site 262727003482 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 262727003483 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 262727003484 active site 262727003485 dimer interface [polypeptide binding]; other site 262727003486 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 262727003487 dimer interface [polypeptide binding]; other site 262727003488 active site 262727003489 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 262727003490 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 262727003491 active site 262727003492 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 262727003493 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 262727003494 putative metal binding site [ion binding]; other site 262727003495 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 262727003496 arginyl-tRNA synthetase; Region: argS; TIGR00456 262727003497 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 262727003498 active site 262727003499 HIGH motif; other site 262727003500 KMSK motif region; other site 262727003501 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 262727003502 tRNA binding surface [nucleotide binding]; other site 262727003503 anticodon binding site; other site 262727003504 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 262727003505 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 262727003506 putative valine binding site [chemical binding]; other site 262727003507 dimer interface [polypeptide binding]; other site 262727003508 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 262727003509 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 262727003510 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 262727003511 PYR/PP interface [polypeptide binding]; other site 262727003512 dimer interface [polypeptide binding]; other site 262727003513 TPP binding site [chemical binding]; other site 262727003514 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 262727003515 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 262727003516 TPP-binding site [chemical binding]; other site 262727003517 dimer interface [polypeptide binding]; other site 262727003518 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 262727003519 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 262727003520 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 262727003521 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 262727003522 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 262727003523 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 262727003524 putative active site [active] 262727003525 putative substrate binding site [chemical binding]; other site 262727003526 putative cosubstrate binding site; other site 262727003527 catalytic site [active] 262727003528 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 262727003529 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 262727003530 hinge; other site 262727003531 active site 262727003532 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 262727003533 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 262727003534 cofactor binding site; other site 262727003535 DNA binding site [nucleotide binding] 262727003536 substrate interaction site [chemical binding]; other site 262727003537 recombination factor protein RarA; Reviewed; Region: PRK13342 262727003538 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 262727003539 Walker A motif; other site 262727003540 ATP binding site [chemical binding]; other site 262727003541 Walker B motif; other site 262727003542 arginine finger; other site 262727003543 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 262727003544 periplasmic chaperone LolA; Region: lolA; TIGR00547 262727003545 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 262727003546 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 262727003547 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 262727003548 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 262727003549 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 262727003550 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 262727003551 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 262727003552 putative DNA binding site [nucleotide binding]; other site 262727003553 putative Zn2+ binding site [ion binding]; other site 262727003554 AsnC family; Region: AsnC_trans_reg; pfam01037 262727003555 DNA repair protein RadA; Region: sms; TIGR00416 262727003556 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 262727003557 Walker A motif/ATP binding site; other site 262727003558 ATP binding site [chemical binding]; other site 262727003559 Walker B motif; other site 262727003560 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 262727003561 Uncharacterized conserved protein [Function unknown]; Region: COG3025 262727003562 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 262727003563 putative active site [active] 262727003564 putative metal binding residues [ion binding]; other site 262727003565 signature motif; other site 262727003566 putative triphosphate binding site [ion binding]; other site 262727003567 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 262727003568 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 262727003569 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 262727003570 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 262727003571 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 262727003572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 262727003573 Protein of unknown function (DUF692); Region: DUF692; pfam05114 262727003574 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 262727003575 Predicted membrane protein [Function unknown]; Region: COG2259 262727003576 TIGR00153 family protein; Region: TIGR00153 262727003577 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 262727003578 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 262727003579 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 262727003580 Bacterial SH3 domain homologues; Region: SH3b; smart00287 262727003581 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 262727003582 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 262727003583 active site 262727003584 NTP binding site [chemical binding]; other site 262727003585 metal binding triad [ion binding]; metal-binding site 262727003586 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 262727003587 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 262727003588 Zn2+ binding site [ion binding]; other site 262727003589 Mg2+ binding site [ion binding]; other site 262727003590 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 262727003591 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 262727003592 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 262727003593 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 262727003594 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 262727003595 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 262727003596 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 262727003597 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 262727003598 active site 262727003599 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 262727003600 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 262727003601 active site 262727003602 HIGH motif; other site 262727003603 dimer interface [polypeptide binding]; other site 262727003604 KMSKS motif; other site 262727003605 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 262727003606 RNA binding surface [nucleotide binding]; other site 262727003607 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 262727003608 multidrug efflux protein; Reviewed; Region: PRK01766 262727003609 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 262727003610 cation binding site [ion binding]; other site 262727003611 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 262727003612 Lumazine binding domain; Region: Lum_binding; pfam00677 262727003613 Lumazine binding domain; Region: Lum_binding; pfam00677 262727003614 aminopeptidase N; Provisional; Region: pepN; PRK14015 262727003615 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 262727003616 active site 262727003617 Zn binding site [ion binding]; other site 262727003618 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 262727003619 Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]; Region: PurK; COG0026 262727003620 ATP-grasp domain; Region: ATP-grasp; pfam02222 262727003621 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 262727003622 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 262727003623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727003624 homodimer interface [polypeptide binding]; other site 262727003625 catalytic residue [active] 262727003626 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 262727003627 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 262727003628 Walker A/P-loop; other site 262727003629 ATP binding site [chemical binding]; other site 262727003630 Q-loop/lid; other site 262727003631 ABC transporter signature motif; other site 262727003632 Walker B; other site 262727003633 D-loop; other site 262727003634 H-loop/switch region; other site 262727003635 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 262727003636 cobalt transport protein CbiM; Validated; Region: PRK06265 262727003637 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 262727003638 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 262727003639 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 262727003640 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 262727003641 DNA binding residues [nucleotide binding] 262727003642 dimer interface [polypeptide binding]; other site 262727003643 putative metal binding site [ion binding]; other site 262727003644 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 262727003645 Sel1-like repeats; Region: SEL1; smart00671 262727003646 Sel1-like repeats; Region: SEL1; smart00671 262727003647 YwiC-like protein; Region: YwiC; pfam14256 262727003648 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 262727003649 homotrimer interaction site [polypeptide binding]; other site 262727003650 putative active site [active] 262727003651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 262727003652 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 262727003653 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 262727003654 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 262727003655 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 262727003656 5S rRNA interface [nucleotide binding]; other site 262727003657 CTC domain interface [polypeptide binding]; other site 262727003658 L16 interface [polypeptide binding]; other site 262727003659 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 262727003660 substrate binding site [chemical binding]; other site 262727003661 nucleotide binding site [chemical binding]; other site 262727003662 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 262727003663 dimer interface [polypeptide binding]; other site 262727003664 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 262727003665 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 262727003666 GDP-binding site [chemical binding]; other site 262727003667 ACT binding site; other site 262727003668 IMP binding site; other site 262727003669 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 262727003670 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 262727003671 trimer interface [polypeptide binding]; other site 262727003672 active site 262727003673 substrate binding site [chemical binding]; other site 262727003674 CoA binding site [chemical binding]; other site 262727003675 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 262727003676 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 262727003677 DNA binding site [nucleotide binding] 262727003678 domain linker motif; other site 262727003679 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 262727003680 dimerization interface [polypeptide binding]; other site 262727003681 ligand binding site [chemical binding]; other site 262727003682 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 262727003683 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 262727003684 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 262727003685 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 262727003686 cofactor binding site; other site 262727003687 DNA binding site [nucleotide binding] 262727003688 substrate interaction site [chemical binding]; other site 262727003689 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 262727003690 HNH endonuclease; Region: HNH_2; pfam13391 262727003691 Predicted ATPase [General function prediction only]; Region: COG3106 262727003692 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 262727003693 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 262727003694 peptide binding site [polypeptide binding]; other site 262727003695 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 262727003696 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 262727003697 dimer interface [polypeptide binding]; other site 262727003698 conserved gate region; other site 262727003699 putative PBP binding loops; other site 262727003700 ABC-ATPase subunit interface; other site 262727003701 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 262727003702 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 262727003703 dimer interface [polypeptide binding]; other site 262727003704 conserved gate region; other site 262727003705 putative PBP binding loops; other site 262727003706 ABC-ATPase subunit interface; other site 262727003707 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 262727003708 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 262727003709 Walker A/P-loop; other site 262727003710 ATP binding site [chemical binding]; other site 262727003711 Q-loop/lid; other site 262727003712 ABC transporter signature motif; other site 262727003713 Walker B; other site 262727003714 D-loop; other site 262727003715 H-loop/switch region; other site 262727003716 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 262727003717 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 262727003718 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 262727003719 Walker A/P-loop; other site 262727003720 ATP binding site [chemical binding]; other site 262727003721 Q-loop/lid; other site 262727003722 ABC transporter signature motif; other site 262727003723 Walker B; other site 262727003724 D-loop; other site 262727003725 H-loop/switch region; other site 262727003726 conserved hypothetical integral membrane protein; Region: TIGR00698 262727003727 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 262727003728 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 262727003729 dimerization interface 3.5A [polypeptide binding]; other site 262727003730 active site 262727003731 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 262727003732 AMP binding site [chemical binding]; other site 262727003733 metal binding site [ion binding]; metal-binding site 262727003734 active site 262727003735 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 262727003736 L-lactate transport; Region: lctP; TIGR00795 262727003737 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 262727003738 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 262727003739 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 262727003740 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 262727003741 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 262727003742 catalytic residues [active] 262727003743 hinge region; other site 262727003744 alpha helical domain; other site 262727003745 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 262727003746 DHH family; Region: DHH; pfam01368 262727003747 DHHA1 domain; Region: DHHA1; pfam02272 262727003748 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 262727003749 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 262727003750 dimerization domain [polypeptide binding]; other site 262727003751 dimer interface [polypeptide binding]; other site 262727003752 catalytic residues [active] 262727003753 peptide chain release factor 2; Validated; Region: prfB; PRK00578 262727003754 This domain is found in peptide chain release factors; Region: PCRF; smart00937 262727003755 RF-1 domain; Region: RF-1; pfam00472 262727003756 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 262727003757 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 262727003758 dimer interface [polypeptide binding]; other site 262727003759 putative anticodon binding site; other site 262727003760 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 262727003761 motif 1; other site 262727003762 active site 262727003763 motif 2; other site 262727003764 motif 3; other site 262727003765 malate dehydrogenase; Provisional; Region: PRK05086 262727003766 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 262727003767 NAD binding site [chemical binding]; other site 262727003768 dimerization interface [polypeptide binding]; other site 262727003769 Substrate binding site [chemical binding]; other site 262727003770 arginine repressor; Provisional; Region: PRK05066 262727003771 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 262727003772 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 262727003773 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 262727003774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 262727003775 NAD(P) binding site [chemical binding]; other site 262727003776 active site 262727003777 amidophosphoribosyltransferase; Provisional; Region: PRK09246 262727003778 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 262727003779 active site 262727003780 tetramer interface [polypeptide binding]; other site 262727003781 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 262727003782 active site 262727003783 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 262727003784 Colicin V production protein; Region: Colicin_V; cl00567 262727003785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3092 262727003786 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 262727003787 propionate/acetate kinase; Provisional; Region: PRK12379 262727003788 phosphate acetyltransferase; Reviewed; Region: PRK05632 262727003789 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 262727003790 DRTGG domain; Region: DRTGG; pfam07085 262727003791 phosphate acetyltransferase; Region: pta; TIGR00651 262727003792 hypothetical protein; Provisional; Region: PRK04946 262727003793 Smr domain; Region: Smr; pfam01713 262727003794 HemK family putative methylases; Region: hemK_fam; TIGR00536 262727003795 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 262727003796 S-adenosylmethionine binding site [chemical binding]; other site 262727003797 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 262727003798 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 262727003799 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 262727003800 substrate binding site [chemical binding]; other site 262727003801 dimerization interface [polypeptide binding]; other site 262727003802 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 262727003803 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 262727003804 RNA binding surface [nucleotide binding]; other site 262727003805 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 262727003806 probable active site [active] 262727003807 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 262727003808 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 262727003809 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 262727003810 CoA-ligase; Region: Ligase_CoA; pfam00549 262727003811 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 262727003812 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 262727003813 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 262727003814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 262727003815 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 262727003816 dimerization interface [polypeptide binding]; other site 262727003817 substrate binding pocket [chemical binding]; other site 262727003818 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 262727003819 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 262727003820 homodimer interface [polypeptide binding]; other site 262727003821 substrate-cofactor binding pocket; other site 262727003822 catalytic residue [active] 262727003823 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 262727003824 Ligand Binding Site [chemical binding]; other site 262727003825 6-pyruvoyl tetrahydropterin synthase/QueD family protein; Region: 6PTHBS; TIGR00039 262727003826 active site 262727003827 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 262727003828 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 262727003829 FeS/SAM binding site; other site 262727003830 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 262727003831 Part of AAA domain; Region: AAA_19; pfam13245 262727003832 Family description; Region: UvrD_C_2; pfam13538 262727003833 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 262727003834 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 262727003835 dimer interface [polypeptide binding]; other site 262727003836 conserved gate region; other site 262727003837 putative PBP binding loops; other site 262727003838 ABC-ATPase subunit interface; other site 262727003839 dipeptide transporter; Provisional; Region: PRK10913 262727003840 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 262727003841 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 262727003842 dimer interface [polypeptide binding]; other site 262727003843 conserved gate region; other site 262727003844 putative PBP binding loops; other site 262727003845 ABC-ATPase subunit interface; other site 262727003846 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 262727003847 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 262727003848 Walker A/P-loop; other site 262727003849 ATP binding site [chemical binding]; other site 262727003850 Q-loop/lid; other site 262727003851 ABC transporter signature motif; other site 262727003852 Walker B; other site 262727003853 D-loop; other site 262727003854 H-loop/switch region; other site 262727003855 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 262727003856 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 262727003857 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 262727003858 Walker A/P-loop; other site 262727003859 ATP binding site [chemical binding]; other site 262727003860 Q-loop/lid; other site 262727003861 ABC transporter signature motif; other site 262727003862 Walker B; other site 262727003863 D-loop; other site 262727003864 H-loop/switch region; other site 262727003865 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 262727003866 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK07636 262727003867 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 262727003868 DNA binding site [nucleotide binding] 262727003869 active site 262727003870 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 262727003871 DNA binding site [nucleotide binding] 262727003872 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 262727003873 dimer interface [polypeptide binding]; other site 262727003874 active site 262727003875 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 262727003876 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727003877 Walker A/P-loop; other site 262727003878 ATP binding site [chemical binding]; other site 262727003879 Q-loop/lid; other site 262727003880 ABC transporter signature motif; other site 262727003881 Walker B; other site 262727003882 D-loop; other site 262727003883 H-loop/switch region; other site 262727003884 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 262727003885 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 262727003886 substrate binding pocket [chemical binding]; other site 262727003887 membrane-bound complex binding site; other site 262727003888 hinge residues; other site 262727003889 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 262727003890 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 262727003891 dimer interface [polypeptide binding]; other site 262727003892 conserved gate region; other site 262727003893 putative PBP binding loops; other site 262727003894 ABC-ATPase subunit interface; other site 262727003895 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 262727003896 dimer interface [polypeptide binding]; other site 262727003897 conserved gate region; other site 262727003898 putative PBP binding loops; other site 262727003899 ABC-ATPase subunit interface; other site 262727003900 YadA-like C-terminal region; Region: YadA; pfam03895 262727003901 Opacity family porin protein; Region: Opacity; pfam02462 262727003902 hypothetical protein; Provisional; Region: PRK04860 262727003903 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 262727003904 S-adenosylmethionine synthetase; Validated; Region: PRK05250 262727003905 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 262727003906 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 262727003907 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 262727003908 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 262727003909 Glutamine amidotransferase class-I; Region: GATase; pfam00117 262727003910 glutamine binding [chemical binding]; other site 262727003911 catalytic triad [active] 262727003912 para-aminobenzoate synthase component I; Validated; Region: PRK07093 262727003913 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 262727003914 hypothetical protein; Provisional; Region: PRK07101 262727003915 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 262727003916 substrate-cofactor binding pocket; other site 262727003917 hypothetical protein; Provisional; Region: PRK05423 262727003918 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 262727003919 homodimer interface [polypeptide binding]; other site 262727003920 substrate-cofactor binding pocket; other site 262727003921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727003922 catalytic residue [active] 262727003923 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 262727003924 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 262727003925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727003926 homodimer interface [polypeptide binding]; other site 262727003927 catalytic residue [active] 262727003928 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 262727003929 putative GSH binding site [chemical binding]; other site 262727003930 catalytic residues [active] 262727003931 outer membrane protein A; Reviewed; Region: PRK10808 262727003932 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 262727003933 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 262727003934 ligand binding site [chemical binding]; other site 262727003935 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 262727003936 FAD binding domain; Region: FAD_binding_4; pfam01565 262727003937 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 262727003938 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 262727003939 CoenzymeA binding site [chemical binding]; other site 262727003940 subunit interaction site [polypeptide binding]; other site 262727003941 PHB binding site; other site 262727003942 ferrochelatase; Region: hemH; TIGR00109 262727003943 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 262727003944 C-terminal domain interface [polypeptide binding]; other site 262727003945 active site 262727003946 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 262727003947 active site 262727003948 N-terminal domain interface [polypeptide binding]; other site 262727003949 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 262727003950 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 262727003951 thioredoxin reductase; Provisional; Region: PRK10262 262727003952 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 262727003953 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 262727003954 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 262727003955 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 262727003956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727003957 Walker A/P-loop; other site 262727003958 ATP binding site [chemical binding]; other site 262727003959 Q-loop/lid; other site 262727003960 ABC transporter signature motif; other site 262727003961 Walker B; other site 262727003962 D-loop; other site 262727003963 H-loop/switch region; other site 262727003964 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 262727003965 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 262727003966 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 262727003967 Walker A/P-loop; other site 262727003968 ATP binding site [chemical binding]; other site 262727003969 Q-loop/lid; other site 262727003970 ABC transporter signature motif; other site 262727003971 Walker B; other site 262727003972 D-loop; other site 262727003973 H-loop/switch region; other site 262727003974 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 262727003975 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 262727003976 FeS/SAM binding site; other site 262727003977 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 262727003978 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 262727003979 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 262727003980 active site 262727003981 peptidase PmbA; Provisional; Region: PRK11040 262727003982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 262727003983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 262727003984 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 262727003985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 262727003986 OstA-like protein; Region: OstA; cl00844 262727003987 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 262727003988 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 262727003989 Walker A/P-loop; other site 262727003990 ATP binding site [chemical binding]; other site 262727003991 Q-loop/lid; other site 262727003992 ABC transporter signature motif; other site 262727003993 Walker B; other site 262727003994 D-loop; other site 262727003995 H-loop/switch region; other site 262727003996 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 262727003997 active site 262727003998 phosphorylation site [posttranslational modification] 262727003999 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 262727004000 AAA domain; Region: AAA_22; pfam13401 262727004001 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 262727004002 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 262727004003 Prephenate dehydratase; Region: PDT; pfam00800 262727004004 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 262727004005 putative L-Phe binding site [chemical binding]; other site 262727004006 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 262727004007 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 262727004008 cell division protein FtsZ; Validated; Region: PRK09330 262727004009 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 262727004010 nucleotide binding site [chemical binding]; other site 262727004011 SulA interaction site; other site 262727004012 cell division protein FtsA; Region: ftsA; TIGR01174 262727004013 Cell division protein FtsA; Region: FtsA; smart00842 262727004014 Cell division protein FtsA; Region: FtsA; pfam14450 262727004015 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 262727004016 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 262727004017 Cell division protein FtsQ; Region: FtsQ; pfam03799 262727004018 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 262727004019 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 262727004020 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 262727004021 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 262727004022 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 262727004023 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 262727004024 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 262727004025 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 262727004026 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 262727004027 active site 262727004028 homodimer interface [polypeptide binding]; other site 262727004029 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 262727004030 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 262727004031 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 262727004032 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 262727004033 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 262727004034 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 262727004035 Mg++ binding site [ion binding]; other site 262727004036 putative catalytic motif [active] 262727004037 putative substrate binding site [chemical binding]; other site 262727004038 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 262727004039 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 262727004040 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 262727004041 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 262727004042 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 262727004043 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 262727004044 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 262727004045 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 262727004046 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 262727004047 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 262727004048 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 262727004049 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 262727004050 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 262727004051 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 262727004052 mraZ protein; Region: TIGR00242 262727004053 MraZ protein; Region: MraZ; pfam02381 262727004054 MraZ protein; Region: MraZ; pfam02381 262727004055 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 262727004056 Carbon starvation protein CstA; Region: CstA; pfam02554 262727004057 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 262727004058 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 262727004059 transaldolase-like protein; Provisional; Region: PTZ00411 262727004060 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 262727004061 active site 262727004062 dimer interface [polypeptide binding]; other site 262727004063 catalytic residue [active] 262727004064 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 262727004065 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 262727004066 peptide binding site [polypeptide binding]; other site 262727004067 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 262727004068 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 262727004069 dimer interface [polypeptide binding]; other site 262727004070 conserved gate region; other site 262727004071 putative PBP binding loops; other site 262727004072 ABC-ATPase subunit interface; other site 262727004073 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 262727004074 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 262727004075 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 262727004076 dimer interface [polypeptide binding]; other site 262727004077 conserved gate region; other site 262727004078 ABC-ATPase subunit interface; other site 262727004079 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 262727004080 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 262727004081 Walker A/P-loop; other site 262727004082 ATP binding site [chemical binding]; other site 262727004083 Q-loop/lid; other site 262727004084 ABC transporter signature motif; other site 262727004085 Walker B; other site 262727004086 D-loop; other site 262727004087 H-loop/switch region; other site 262727004088 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 262727004089 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 262727004090 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 262727004091 Walker A/P-loop; other site 262727004092 ATP binding site [chemical binding]; other site 262727004093 Q-loop/lid; other site 262727004094 ABC transporter signature motif; other site 262727004095 Walker B; other site 262727004096 D-loop; other site 262727004097 H-loop/switch region; other site 262727004098 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 262727004099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 262727004100 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 262727004101 G1 box; other site 262727004102 GTP/Mg2+ binding site [chemical binding]; other site 262727004103 Switch I region; other site 262727004104 G2 box; other site 262727004105 G3 box; other site 262727004106 Switch II region; other site 262727004107 G4 box; other site 262727004108 G5 box; other site 262727004109 Mg chelatase-related protein; Region: TIGR00368 262727004110 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 262727004111 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 262727004112 Walker A motif; other site 262727004113 ATP binding site [chemical binding]; other site 262727004114 Walker B motif; other site 262727004115 arginine finger; other site 262727004116 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 262727004117 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 262727004118 intersubunit interface [polypeptide binding]; other site 262727004119 active site 262727004120 catalytic residue [active] 262727004121 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 262727004122 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 262727004123 catalytic residues [active] 262727004124 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 262727004125 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 262727004126 NADP binding site [chemical binding]; other site 262727004127 homopentamer interface [polypeptide binding]; other site 262727004128 substrate binding site [chemical binding]; other site 262727004129 active site 262727004130 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 262727004131 N- and C-terminal domain interface [polypeptide binding]; other site 262727004132 D-xylulose kinase; Region: XylB; TIGR01312 262727004133 active site 262727004134 MgATP binding site [chemical binding]; other site 262727004135 catalytic site [active] 262727004136 metal binding site [ion binding]; metal-binding site 262727004137 xylulose binding site [chemical binding]; other site 262727004138 putative homodimer interface [polypeptide binding]; other site 262727004139 xylose isomerase; Provisional; Region: PRK05474 262727004140 xylose isomerase; Region: xylose_isom_A; TIGR02630 262727004141 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 262727004142 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 262727004143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727004144 homodimer interface [polypeptide binding]; other site 262727004145 catalytic residue [active] 262727004146 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 262727004147 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 262727004148 putative dimerization interface [polypeptide binding]; other site 262727004149 Transcriptional regulators [Transcription]; Region: PurR; COG1609 262727004150 putative ligand binding site [chemical binding]; other site 262727004151 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 262727004152 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 262727004153 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 262727004154 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 262727004155 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 262727004156 putative active site [active] 262727004157 benzoate transport; Region: 2A0115; TIGR00895 262727004158 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 262727004159 putative substrate translocation pore; other site 262727004160 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 262727004161 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 262727004162 dimer interface [polypeptide binding]; other site 262727004163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727004164 catalytic residue [active] 262727004165 putative sulfate transport protein CysZ; Validated; Region: PRK04949 262727004166 cell division protein ZipA; Provisional; Region: PRK01741 262727004167 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 262727004168 FtsZ protein binding site [polypeptide binding]; other site 262727004169 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 262727004170 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 262727004171 nucleotide binding pocket [chemical binding]; other site 262727004172 K-X-D-G motif; other site 262727004173 catalytic site [active] 262727004174 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 262727004175 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 262727004176 Helix-hairpin-helix motif; Region: HHH; pfam00633 262727004177 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 262727004178 Dimer interface [polypeptide binding]; other site 262727004179 BRCT sequence motif; other site 262727004180 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 262727004181 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 262727004182 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 262727004183 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 262727004184 TPR motif; other site 262727004185 binding surface 262727004186 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 262727004187 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 262727004188 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 262727004189 catalytic residues [active] 262727004190 central insert; other site 262727004191 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 262727004192 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 262727004193 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 262727004194 heme exporter protein CcmC; Region: ccmC; TIGR01191 262727004195 heme exporter protein CcmB; Region: ccmB; TIGR01190 262727004196 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 262727004197 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727004198 Walker A/P-loop; other site 262727004199 ATP binding site [chemical binding]; other site 262727004200 Q-loop/lid; other site 262727004201 ABC transporter signature motif; other site 262727004202 Walker B; other site 262727004203 D-loop; other site 262727004204 H-loop/switch region; other site 262727004205 superoxide dismutase; Provisional; Region: PRK10925 262727004206 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 262727004207 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 262727004208 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 262727004209 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 262727004210 Walker A/P-loop; other site 262727004211 ATP binding site [chemical binding]; other site 262727004212 Q-loop/lid; other site 262727004213 ABC transporter signature motif; other site 262727004214 Walker B; other site 262727004215 D-loop; other site 262727004216 H-loop/switch region; other site 262727004217 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 262727004218 conserved hypothetical integral membrane protein; Region: TIGR00056 262727004219 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 262727004220 mce related protein; Region: MCE; pfam02470 262727004221 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 262727004222 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 262727004223 anti sigma factor interaction site; other site 262727004224 regulatory phosphorylation site [posttranslational modification]; other site 262727004225 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 262727004226 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 262727004227 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 262727004228 hinge; other site 262727004229 active site 262727004230 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 262727004231 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 262727004232 substrate binding pocket [chemical binding]; other site 262727004233 membrane-bound complex binding site; other site 262727004234 hinge residues; other site 262727004235 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 262727004236 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 262727004237 dimer interface [polypeptide binding]; other site 262727004238 conserved gate region; other site 262727004239 putative PBP binding loops; other site 262727004240 ABC-ATPase subunit interface; other site 262727004241 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 262727004242 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 262727004243 Walker A/P-loop; other site 262727004244 ATP binding site [chemical binding]; other site 262727004245 Q-loop/lid; other site 262727004246 ABC transporter signature motif; other site 262727004247 Walker B; other site 262727004248 D-loop; other site 262727004249 H-loop/switch region; other site 262727004250 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 262727004251 CTP synthetase; Validated; Region: pyrG; PRK05380 262727004252 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 262727004253 Catalytic site [active] 262727004254 active site 262727004255 UTP binding site [chemical binding]; other site 262727004256 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 262727004257 active site 262727004258 putative oxyanion hole; other site 262727004259 catalytic triad [active] 262727004260 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 262727004261 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 262727004262 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 262727004263 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 262727004264 Predicted membrane protein [Function unknown]; Region: COG2707 262727004265 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 262727004266 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 262727004267 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 262727004268 ATP binding site [chemical binding]; other site 262727004269 putative Mg++ binding site [ion binding]; other site 262727004270 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 262727004271 nucleotide binding region [chemical binding]; other site 262727004272 ATP-binding site [chemical binding]; other site 262727004273 Helicase associated domain (HA2); Region: HA2; pfam04408 262727004274 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 262727004275 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 262727004276 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 262727004277 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 262727004278 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 262727004279 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 262727004280 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 262727004281 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 262727004282 putative nucleotide binding site [chemical binding]; other site 262727004283 uridine monophosphate binding site [chemical binding]; other site 262727004284 homohexameric interface [polypeptide binding]; other site 262727004285 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 262727004286 Sulfatase; Region: Sulfatase; pfam00884 262727004287 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 262727004288 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 262727004289 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 262727004290 active site 262727004291 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 262727004292 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 262727004293 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 262727004294 RNA/DNA hybrid binding site [nucleotide binding]; other site 262727004295 active site 262727004296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 262727004297 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 262727004298 Cupin; Region: Cupin_6; pfam12852 262727004299 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 262727004300 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 262727004301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 262727004302 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 262727004303 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 262727004304 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 262727004305 Walker A/P-loop; other site 262727004306 ATP binding site [chemical binding]; other site 262727004307 Q-loop/lid; other site 262727004308 ABC transporter signature motif; other site 262727004309 Walker B; other site 262727004310 D-loop; other site 262727004311 H-loop/switch region; other site 262727004312 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 262727004313 metal-binding site [ion binding] 262727004314 MerT mercuric transport protein; Region: MerT; cl03578 262727004315 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 262727004316 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 262727004317 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 262727004318 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 262727004319 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 262727004320 putative [Fe4-S4] binding site [ion binding]; other site 262727004321 putative molybdopterin cofactor binding site [chemical binding]; other site 262727004322 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 262727004323 putative molybdopterin cofactor binding site; other site 262727004324 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 262727004325 4Fe-4S binding domain; Region: Fer4; cl02805 262727004326 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 262727004327 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 262727004328 ferredoxin-type protein NapF; Region: napF; TIGR00402 262727004329 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 262727004330 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 262727004331 active site 262727004332 NTP binding site [chemical binding]; other site 262727004333 metal binding triad [ion binding]; metal-binding site 262727004334 antibiotic binding site [chemical binding]; other site 262727004335 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 262727004336 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 262727004337 AAA domain; Region: AAA_14; pfam13173 262727004338 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 262727004339 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 262727004340 putative active site [active] 262727004341 putative dimer interface [polypeptide binding]; other site 262727004342 YGGT family; Region: YGGT; pfam02325 262727004343 YGGT family; Region: YGGT; pfam02325 262727004344 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 262727004345 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 262727004346 Cl binding site [ion binding]; other site 262727004347 oligomer interface [polypeptide binding]; other site 262727004348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 262727004349 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 262727004350 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 262727004351 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 262727004352 motif II; other site 262727004353 transketolase; Reviewed; Region: PRK12753 262727004354 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 262727004355 TPP-binding site [chemical binding]; other site 262727004356 dimer interface [polypeptide binding]; other site 262727004357 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 262727004358 PYR/PP interface [polypeptide binding]; other site 262727004359 dimer interface [polypeptide binding]; other site 262727004360 TPP binding site [chemical binding]; other site 262727004361 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 262727004362 biotin synthase; Region: bioB; TIGR00433 262727004363 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 262727004364 FeS/SAM binding site; other site 262727004365 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 262727004366 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 262727004367 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727004368 Walker A/P-loop; other site 262727004369 ATP binding site [chemical binding]; other site 262727004370 Q-loop/lid; other site 262727004371 ABC transporter signature motif; other site 262727004372 Walker B; other site 262727004373 D-loop; other site 262727004374 H-loop/switch region; other site 262727004375 thiamine ABC transporter, permease protein; Region: thiP; TIGR01253 262727004376 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 262727004377 dimer interface [polypeptide binding]; other site 262727004378 conserved gate region; other site 262727004379 putative PBP binding loops; other site 262727004380 ABC-ATPase subunit interface; other site 262727004381 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 262727004382 dimer interface [polypeptide binding]; other site 262727004383 conserved gate region; other site 262727004384 putative PBP binding loops; other site 262727004385 ABC-ATPase subunit interface; other site 262727004386 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 262727004387 thiamine ABC transporter, periplasmic binding protein; Region: thiB; TIGR01276 262727004388 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 262727004389 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 262727004390 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 262727004391 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 262727004392 lipoprotein signal peptidase; Provisional; Region: PRK14787 262727004393 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 262727004394 Sulfatase; Region: Sulfatase; pfam00884 262727004395 periplasmic folding chaperone; Provisional; Region: PRK10788 262727004396 SurA N-terminal domain; Region: SurA_N_3; cl07813 262727004397 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 262727004398 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 262727004399 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 262727004400 trmE is a tRNA modification GTPase; Region: trmE; cd04164 262727004401 G1 box; other site 262727004402 GTP/Mg2+ binding site [chemical binding]; other site 262727004403 Switch I region; other site 262727004404 G2 box; other site 262727004405 Switch II region; other site 262727004406 G3 box; other site 262727004407 G4 box; other site 262727004408 G5 box; other site 262727004409 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 262727004410 membrane protein insertase; Provisional; Region: PRK01318 262727004411 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 262727004412 hypothetical protein; Validated; Region: PRK00041 262727004413 ribonuclease P; Reviewed; Region: rnpA; PRK01732 262727004414 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 262727004415 Protein of unknown function (DUF560); Region: DUF560; pfam04575 262727004416 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 262727004417 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 262727004418 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 262727004419 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 262727004420 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 262727004421 DnaA N-terminal domain; Region: DnaA_N; pfam11638 262727004422 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 262727004423 Walker A motif; other site 262727004424 ATP binding site [chemical binding]; other site 262727004425 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 262727004426 Walker B motif; other site 262727004427 arginine finger; other site 262727004428 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 262727004429 DnaA box-binding interface [nucleotide binding]; other site 262727004430 DNA polymerase III subunit beta; Validated; Region: PRK05643 262727004431 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 262727004432 putative DNA binding surface [nucleotide binding]; other site 262727004433 dimer interface [polypeptide binding]; other site 262727004434 beta-clamp/clamp loader binding surface; other site 262727004435 beta-clamp/translesion DNA polymerase binding surface; other site 262727004436 recF protein; Region: recf; TIGR00611 262727004437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727004438 Walker A/P-loop; other site 262727004439 ATP binding site [chemical binding]; other site 262727004440 Q-loop/lid; other site 262727004441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727004442 ABC transporter signature motif; other site 262727004443 Walker B; other site 262727004444 D-loop; other site 262727004445 H-loop/switch region; other site 262727004446 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 262727004447 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 262727004448 cell division protein DamX; Validated; Region: PRK10905 262727004449 Autotransporter beta-domain; Region: Autotransporter; pfam03797 262727004450 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 262727004451 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 262727004452 substrate binding site [chemical binding]; other site 262727004453 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 262727004454 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 262727004455 substrate binding site [chemical binding]; other site 262727004456 ligand binding site [chemical binding]; other site 262727004457 tartrate dehydrogenase; Region: TTC; TIGR02089 262727004458 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 262727004459 2-isopropylmalate synthase; Validated; Region: PRK00915 262727004460 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 262727004461 active site 262727004462 catalytic residues [active] 262727004463 metal binding site [ion binding]; metal-binding site 262727004464 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 262727004465 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 262727004466 DNA protecting protein DprA; Region: dprA; TIGR00732 262727004467 hypothetical protein; Validated; Region: PRK02101 262727004468 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 262727004469 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 262727004470 active site 262727004471 ADP/pyrophosphate binding site [chemical binding]; other site 262727004472 dimerization interface [polypeptide binding]; other site 262727004473 allosteric effector site; other site 262727004474 fructose-1,6-bisphosphate binding site; other site 262727004475 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 262727004476 SmpB-tmRNA interface; other site 262727004477 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 262727004478 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 262727004479 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 262727004480 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 262727004481 FMN binding site [chemical binding]; other site 262727004482 active site 262727004483 catalytic residues [active] 262727004484 substrate binding site [chemical binding]; other site 262727004485 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 262727004486 Methyltransferase domain; Region: Methyltransf_18; pfam12847 262727004487 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 262727004488 Fic/DOC family; Region: Fic; cl00960 262727004489 EamA-like transporter family; Region: EamA; pfam00892 262727004490 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 262727004491 EamA-like transporter family; Region: EamA; pfam00892 262727004492 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 262727004493 Na binding site [ion binding]; other site 262727004494 Predicted membrane protein [Function unknown]; Region: COG3924 262727004495 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 262727004496 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 262727004497 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 262727004498 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 262727004499 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 262727004500 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 262727004501 carboxyltransferase (CT) interaction site; other site 262727004502 biotinylation site [posttranslational modification]; other site 262727004503 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 262727004504 Dehydroquinase class II; Region: DHquinase_II; pfam01220 262727004505 active site 262727004506 trimer interface [polypeptide binding]; other site 262727004507 dimer interface [polypeptide binding]; other site 262727004508 O-succinylbenzoate synthase [Coenzyme metabolism]; Region: MenC; COG1441 262727004509 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 262727004510 active site 262727004511 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 262727004512 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 262727004513 substrate binding site [chemical binding]; other site 262727004514 oxyanion hole (OAH) forming residues; other site 262727004515 trimer interface [polypeptide binding]; other site 262727004516 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 262727004517 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 262727004518 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 262727004519 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 262727004520 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 262727004521 active site 262727004522 Riboflavin kinase; Region: Flavokinase; smart00904 262727004523 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 262727004524 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 262727004525 active site 262727004526 HIGH motif; other site 262727004527 nucleotide binding site [chemical binding]; other site 262727004528 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 262727004529 active site 262727004530 KMSKS motif; other site 262727004531 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 262727004532 tRNA binding surface [nucleotide binding]; other site 262727004533 anticodon binding site; other site 262727004534 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 262727004535 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 262727004536 nucleotide binding site/active site [active] 262727004537 HIT family signature motif; other site 262727004538 catalytic residue [active] 262727004539 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 262727004540 putative dimer interface [polypeptide binding]; other site 262727004541 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 262727004542 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 262727004543 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 262727004544 ligand binding site [chemical binding]; other site 262727004545 flexible hinge region; other site 262727004546 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 262727004547 putative switch regulator; other site 262727004548 non-specific DNA interactions [nucleotide binding]; other site 262727004549 DNA binding site [nucleotide binding] 262727004550 sequence specific DNA binding site [nucleotide binding]; other site 262727004551 putative cAMP binding site [chemical binding]; other site 262727004552 hypothetical protein; Provisional; Region: PRK04966 262727004553 division inhibitor protein; Provisional; Region: slmA; PRK09480 262727004554 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 262727004555 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 262727004556 trimer interface [polypeptide binding]; other site 262727004557 active site 262727004558 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 262727004559 Flavoprotein; Region: Flavoprotein; pfam02441 262727004560 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 262727004561 hypothetical protein; Reviewed; Region: PRK00024 262727004562 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 262727004563 MPN+ (JAMM) motif; other site 262727004564 Zinc-binding site [ion binding]; other site 262727004565 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 262727004566 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 262727004567 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 262727004568 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 262727004569 inhibitor-cofactor binding pocket; inhibition site 262727004570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727004571 catalytic residue [active] 262727004572 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 262727004573 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 262727004574 oligomeric interface; other site 262727004575 putative active site [active] 262727004576 homodimer interface [polypeptide binding]; other site 262727004577 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 262727004578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727004579 catalytic residue [active] 262727004580 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 262727004581 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 262727004582 DNA binding site [nucleotide binding] 262727004583 catalytic residue [active] 262727004584 H2TH interface [polypeptide binding]; other site 262727004585 putative catalytic residues [active] 262727004586 turnover-facilitating residue; other site 262727004587 intercalation triad [nucleotide binding]; other site 262727004588 8OG recognition residue [nucleotide binding]; other site 262727004589 putative reading head residues; other site 262727004590 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 262727004591 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 262727004592 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 262727004593 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 262727004594 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 262727004595 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 262727004596 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 262727004597 catalytic motif [active] 262727004598 Zn binding site [ion binding]; other site 262727004599 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 262727004600 transcriptional regulator NrdR; Region: TIGR00244 262727004601 ATP cone domain; Region: ATP-cone; pfam03477 262727004602 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 262727004603 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 262727004604 Protein of unknown function (DUF2572); Region: DUF2572; pfam10833 262727004605 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 262727004606 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 262727004607 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 262727004608 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 262727004609 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 262727004610 active site 262727004611 dimerization interface [polypeptide binding]; other site 262727004612 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 262727004613 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 262727004614 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 262727004615 catalytic residues [active] 262727004616 central insert; other site 262727004617 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 262727004618 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 262727004619 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 262727004620 binding surface 262727004621 TPR motif; other site 262727004622 Predicted flavoproteins [General function prediction only]; Region: COG2081 262727004623 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 262727004624 enolase; Provisional; Region: eno; PRK00077 262727004625 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 262727004626 dimer interface [polypeptide binding]; other site 262727004627 metal binding site [ion binding]; metal-binding site 262727004628 substrate binding pocket [chemical binding]; other site 262727004629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 262727004630 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 262727004631 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 262727004632 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 262727004633 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 262727004634 tetramer interface [polypeptide binding]; other site 262727004635 heme binding pocket [chemical binding]; other site 262727004636 NADPH binding site [chemical binding]; other site 262727004637 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 262727004638 dimer interface [polypeptide binding]; other site 262727004639 motif 1; other site 262727004640 active site 262727004641 motif 2; other site 262727004642 motif 3; other site 262727004643 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 262727004644 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 262727004645 putative active site [active] 262727004646 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 262727004647 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 262727004648 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 262727004649 primosomal protein DnaI; Provisional; Region: PRK02854 262727004650 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 262727004651 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 262727004652 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 262727004653 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 262727004654 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 262727004655 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 262727004656 HIGH motif; other site 262727004657 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 262727004658 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 262727004659 active site 262727004660 KMSKS motif; other site 262727004661 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 262727004662 tRNA binding surface [nucleotide binding]; other site 262727004663 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 262727004664 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 262727004665 catalytic residue [active] 262727004666 putative FPP diphosphate binding site; other site 262727004667 putative FPP binding hydrophobic cleft; other site 262727004668 dimer interface [polypeptide binding]; other site 262727004669 putative IPP diphosphate binding site; other site 262727004670 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 262727004671 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 262727004672 zinc metallopeptidase RseP; Provisional; Region: PRK10779 262727004673 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 262727004674 active site 262727004675 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 262727004676 protein binding site [polypeptide binding]; other site 262727004677 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 262727004678 protein binding site [polypeptide binding]; other site 262727004679 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 262727004680 putative substrate binding region [chemical binding]; other site 262727004681 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 262727004682 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 262727004683 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 262727004684 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 262727004685 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 262727004686 Surface antigen; Region: Bac_surface_Ag; pfam01103 262727004687 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 262727004688 periplasmic chaperone; Provisional; Region: PRK10780 262727004689 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 262727004690 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 262727004691 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 262727004692 trimer interface [polypeptide binding]; other site 262727004693 active site 262727004694 UDP-GlcNAc binding site [chemical binding]; other site 262727004695 lipid binding site [chemical binding]; lipid-binding site 262727004696 elongation factor Ts; Provisional; Region: tsf; PRK09377 262727004697 UBA/TS-N domain; Region: UBA; pfam00627 262727004698 Elongation factor TS; Region: EF_TS; pfam00889 262727004699 Elongation factor TS; Region: EF_TS; pfam00889 262727004700 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 262727004701 rRNA interaction site [nucleotide binding]; other site 262727004702 S8 interaction site; other site 262727004703 putative laminin-1 binding site; other site 262727004704 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 262727004705 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 262727004706 active site 262727004707 8-oxo-dGMP binding site [chemical binding]; other site 262727004708 nudix motif; other site 262727004709 metal binding site [ion binding]; metal-binding site 262727004710 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 262727004711 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 262727004712 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 262727004713 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; cl17351 262727004714 nucleotide binding region [chemical binding]; other site 262727004715 ATP-binding site [chemical binding]; other site 262727004716 SEC-C motif; Region: SEC-C; pfam02810 262727004717 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 262727004718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4701 262727004719 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 262727004720 nucleoside/Zn binding site; other site 262727004721 dimer interface [polypeptide binding]; other site 262727004722 catalytic motif [active] 262727004723 thymidylate synthase; Reviewed; Region: thyA; PRK01827 262727004724 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 262727004725 dimerization interface [polypeptide binding]; other site 262727004726 active site 262727004727 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 262727004728 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 262727004729 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 262727004730 putative active site [active] 262727004731 Ap4A binding site [chemical binding]; other site 262727004732 nudix motif; other site 262727004733 putative metal binding site [ion binding]; other site 262727004734 gamma-glutamyl kinase; Provisional; Region: PRK05429 262727004735 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 262727004736 nucleotide binding site [chemical binding]; other site 262727004737 homotetrameric interface [polypeptide binding]; other site 262727004738 putative phosphate binding site [ion binding]; other site 262727004739 putative allosteric binding site; other site 262727004740 PUA domain; Region: PUA; pfam01472 262727004741 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 262727004742 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 262727004743 folate binding site [chemical binding]; other site 262727004744 NADP+ binding site [chemical binding]; other site 262727004745 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 262727004746 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 262727004747 HlyD family secretion protein; Region: HlyD_3; pfam13437 262727004748 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 262727004749 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 262727004750 putative substrate translocation pore; other site 262727004751 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 262727004752 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 262727004753 Sporulation related domain; Region: SPOR; pfam05036 262727004754 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 262727004755 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 262727004756 HlyD family secretion protein; Region: HlyD_3; pfam13437 262727004757 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 262727004758 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 262727004759 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 262727004760 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 262727004761 ATP binding site [chemical binding]; other site 262727004762 Mg++ binding site [ion binding]; other site 262727004763 motif III; other site 262727004764 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 262727004765 nucleotide binding region [chemical binding]; other site 262727004766 ATP-binding site [chemical binding]; other site 262727004767 DNA gyrase inhibitor; Reviewed; Region: PRK00418 262727004768 dephospho-CoA kinase; Region: TIGR00152 262727004769 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 262727004770 CoA-binding site [chemical binding]; other site 262727004771 ATP-binding [chemical binding]; other site 262727004772 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 262727004773 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 262727004774 dimer interface [polypeptide binding]; other site 262727004775 active site 262727004776 glycine-pyridoxal phosphate binding site [chemical binding]; other site 262727004777 folate binding site [chemical binding]; other site 262727004778 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 262727004779 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 262727004780 active site 262727004781 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 262727004782 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 262727004783 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 262727004784 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 262727004785 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 262727004786 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 262727004787 purine monophosphate binding site [chemical binding]; other site 262727004788 dimer interface [polypeptide binding]; other site 262727004789 putative catalytic residues [active] 262727004790 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 262727004791 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 262727004792 Predicted membrane protein [Function unknown]; Region: COG2259 262727004793 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 262727004794 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 262727004795 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 262727004796 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 262727004797 DsbD alpha interface [polypeptide binding]; other site 262727004798 catalytic residues [active] 262727004799 two-component response regulator; Provisional; Region: PRK11173 262727004800 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 262727004801 active site 262727004802 phosphorylation site [posttranslational modification] 262727004803 intermolecular recognition site; other site 262727004804 dimerization interface [polypeptide binding]; other site 262727004805 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 262727004806 DNA binding site [nucleotide binding] 262727004807 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 262727004808 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 262727004809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 262727004810 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 262727004811 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 262727004812 substrate binding pocket [chemical binding]; other site 262727004813 chain length determination region; other site 262727004814 substrate-Mg2+ binding site; other site 262727004815 catalytic residues [active] 262727004816 aspartate-rich region 1; other site 262727004817 active site lid residues [active] 262727004818 aspartate-rich region 2; other site 262727004819 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 262727004820 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 262727004821 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 262727004822 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 262727004823 EamA-like transporter family; Region: EamA; pfam00892 262727004824 EamA-like transporter family; Region: EamA; pfam00892 262727004825 GTPase CgtA; Reviewed; Region: obgE; PRK12298 262727004826 GTP1/OBG; Region: GTP1_OBG; pfam01018 262727004827 Obg GTPase; Region: Obg; cd01898 262727004828 G1 box; other site 262727004829 GTP/Mg2+ binding site [chemical binding]; other site 262727004830 Switch I region; other site 262727004831 G2 box; other site 262727004832 G3 box; other site 262727004833 Switch II region; other site 262727004834 G4 box; other site 262727004835 G5 box; other site 262727004836 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 262727004837 active site 262727004838 multimer interface [polypeptide binding]; other site 262727004839 aminopeptidase B; Provisional; Region: PRK05015 262727004840 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 262727004841 interface (dimer of trimers) [polypeptide binding]; other site 262727004842 Substrate-binding/catalytic site; other site 262727004843 Zn-binding sites [ion binding]; other site 262727004844 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 262727004845 O-Antigen ligase; Region: Wzy_C; pfam04932 262727004846 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 262727004847 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 262727004848 NAD binding site [chemical binding]; other site 262727004849 substrate binding site [chemical binding]; other site 262727004850 homodimer interface [polypeptide binding]; other site 262727004851 active site 262727004852 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 262727004853 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 262727004854 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 262727004855 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 262727004856 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 262727004857 active site 262727004858 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 262727004859 active site 262727004860 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 262727004861 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 262727004862 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 262727004863 glutamine synthetase; Provisional; Region: glnA; PRK09469 262727004864 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 262727004865 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 262727004866 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 262727004867 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 262727004868 G1 box; other site 262727004869 putative GEF interaction site [polypeptide binding]; other site 262727004870 GTP/Mg2+ binding site [chemical binding]; other site 262727004871 Switch I region; other site 262727004872 G2 box; other site 262727004873 G3 box; other site 262727004874 Switch II region; other site 262727004875 G4 box; other site 262727004876 G5 box; other site 262727004877 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 262727004878 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 262727004879 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 262727004880 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 262727004881 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 262727004882 hypothetical protein; Provisional; Region: PRK11212 262727004883 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 262727004884 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 262727004885 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 262727004886 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 262727004887 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 262727004888 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 262727004889 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 262727004890 ABC-ATPase subunit interface; other site 262727004891 dimer interface [polypeptide binding]; other site 262727004892 putative PBP binding regions; other site 262727004893 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 262727004894 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 262727004895 putative ligand binding residues [chemical binding]; other site 262727004896 YadA-like C-terminal region; Region: YadA; pfam03895 262727004897 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 262727004898 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 262727004899 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 262727004900 RNB domain; Region: RNB; pfam00773 262727004901 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 262727004902 RNA binding site [nucleotide binding]; other site 262727004903 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 262727004904 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 262727004905 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 262727004906 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 262727004907 Clp amino terminal domain; Region: Clp_N; pfam02861 262727004908 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 262727004909 Walker A motif; other site 262727004910 ATP binding site [chemical binding]; other site 262727004911 Walker B motif; other site 262727004912 arginine finger; other site 262727004913 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 262727004914 Walker A motif; other site 262727004915 ATP binding site [chemical binding]; other site 262727004916 Walker B motif; other site 262727004917 arginine finger; other site 262727004918 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 262727004919 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 262727004920 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 262727004921 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 262727004922 DNA polymerase I; Provisional; Region: PRK05755 262727004923 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 262727004924 active site 262727004925 metal binding site 1 [ion binding]; metal-binding site 262727004926 putative 5' ssDNA interaction site; other site 262727004927 metal binding site 3; metal-binding site 262727004928 metal binding site 2 [ion binding]; metal-binding site 262727004929 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 262727004930 putative DNA binding site [nucleotide binding]; other site 262727004931 putative metal binding site [ion binding]; other site 262727004932 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 262727004933 active site 262727004934 catalytic site [active] 262727004935 substrate binding site [chemical binding]; other site 262727004936 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 262727004937 active site 262727004938 DNA binding site [nucleotide binding] 262727004939 catalytic site [active] 262727004940 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 262727004941 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 262727004942 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 262727004943 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 262727004944 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 262727004945 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 262727004946 peptide binding site [polypeptide binding]; other site 262727004947 putative transporter; Provisional; Region: PRK10504 262727004948 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 262727004949 putative substrate translocation pore; other site 262727004950 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 262727004951 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 262727004952 Walker A motif; other site 262727004953 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 262727004954 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 262727004955 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 262727004956 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 262727004957 S-adenosylmethionine binding site [chemical binding]; other site 262727004958 hypothetical protein; Provisional; Region: PRK11027 262727004959 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 262727004960 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 262727004961 catalytic residues [active] 262727004962 hinge region; other site 262727004963 alpha helical domain; other site 262727004964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3084 262727004965 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 262727004966 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 262727004967 GTP binding site; other site 262727004968 hypothetical protein; Validated; Region: PRK06886 262727004969 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 262727004970 active site 262727004971 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 262727004972 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 262727004973 Sulfatase; Region: Sulfatase; cl17466 262727004974 hypothetical protein; Provisional; Region: PRK13689 262727004975 Nucleoid-associated protein [General function prediction only]; Region: COG3081 262727004976 nucleoid-associated protein NdpA; Validated; Region: PRK00378 262727004977 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 262727004978 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 262727004979 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 262727004980 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 262727004981 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 262727004982 active site 262727004983 phosphorylation site [posttranslational modification] 262727004984 intermolecular recognition site; other site 262727004985 dimerization interface [polypeptide binding]; other site 262727004986 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 262727004987 DNA binding site [nucleotide binding] 262727004988 poxB regulator PoxA; Provisional; Region: PRK09350 262727004989 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 262727004990 motif 1; other site 262727004991 dimer interface [polypeptide binding]; other site 262727004992 active site 262727004993 motif 2; other site 262727004994 motif 3; other site 262727004995 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 262727004996 L-aspartate oxidase; Provisional; Region: PRK06175 262727004997 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 262727004998 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 262727004999 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 262727005000 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 262727005001 D-subunit interface [polypeptide binding]; other site 262727005002 Iron-sulfur protein interface; other site 262727005003 proximal quinone binding site [chemical binding]; other site 262727005004 distal quinone binding site [chemical binding]; other site 262727005005 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 262727005006 Iron-sulfur protein interface; other site 262727005007 proximal quinone binding site [chemical binding]; other site 262727005008 C-subunit interface; other site 262727005009 distal quinone binding site; other site 262727005010 monofunctional biosynthetic peptidoglycan transglycosylase; Region: mono_pep_trsgly; TIGR02070 262727005011 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 262727005012 Trp operon repressor; Provisional; Region: PRK01381 262727005013 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 262727005014 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 262727005015 N-acetyl-D-glucosamine binding site [chemical binding]; other site 262727005016 catalytic residue [active] 262727005017 YciI-like protein; Reviewed; Region: PRK11370 262727005018 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 262727005019 Intracellular septation protein A [Cell division and chromosome partitioning]; Region: COG2917 262727005020 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 262727005021 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 262727005022 TM-ABC transporter signature motif; other site 262727005023 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 262727005024 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 262727005025 Walker A/P-loop; other site 262727005026 ATP binding site [chemical binding]; other site 262727005027 Q-loop/lid; other site 262727005028 ABC transporter signature motif; other site 262727005029 Walker B; other site 262727005030 D-loop; other site 262727005031 H-loop/switch region; other site 262727005032 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 262727005033 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 262727005034 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 262727005035 ligand binding site [chemical binding]; other site 262727005036 calcium binding site [ion binding]; other site 262727005037 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 262727005038 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 262727005039 DNA binding site [nucleotide binding] 262727005040 domain linker motif; other site 262727005041 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 262727005042 ligand binding site [chemical binding]; other site 262727005043 dimerization interface (closed form) [polypeptide binding]; other site 262727005044 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 262727005045 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 262727005046 dimer interface [polypeptide binding]; other site 262727005047 active site 262727005048 galactokinase; Provisional; Region: PRK05101 262727005049 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 262727005050 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 262727005051 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 262727005052 active site 262727005053 catalytic residues [active] 262727005054 hypothetical protein; Reviewed; Region: PRK01736 262727005055 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 262727005056 proline aminopeptidase P II; Provisional; Region: PRK10879 262727005057 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 262727005058 active site 262727005059 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 262727005060 Ligand Binding Site [chemical binding]; other site 262727005061 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 262727005062 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 262727005063 motif 1; other site 262727005064 active site 262727005065 motif 2; other site 262727005066 motif 3; other site 262727005067 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 262727005068 DHHA1 domain; Region: DHHA1; pfam02272 262727005069 carbon storage regulator; Provisional; Region: PRK01712 262727005070 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 262727005071 active site 262727005072 tetramer interface; other site 262727005073 argininosuccinate lyase; Provisional; Region: PRK04833 262727005074 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 262727005075 active sites [active] 262727005076 tetramer interface [polypeptide binding]; other site 262727005077 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 262727005078 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 262727005079 dimerization interface [polypeptide binding]; other site 262727005080 domain crossover interface; other site 262727005081 redox-dependent activation switch; other site 262727005082 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 262727005083 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_ATP; cd00484 262727005084 active site 262727005085 substrate-binding site [chemical binding]; other site 262727005086 metal-binding site [ion binding] 262727005087 ATP binding site [chemical binding]; other site 262727005088 ribosome recycling factor; Reviewed; Region: frr; PRK00083 262727005089 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 262727005090 hinge region; other site 262727005091 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 262727005092 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 262727005093 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 262727005094 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 262727005095 Predicted permeases [General function prediction only]; Region: COG0730 262727005096 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 262727005097 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 262727005098 FeS/SAM binding site; other site 262727005099 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 262727005100 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 262727005101 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 262727005102 ligand binding site [chemical binding]; other site 262727005103 flexible hinge region; other site 262727005104 putative switch regulator; other site 262727005105 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 262727005106 non-specific DNA interactions [nucleotide binding]; other site 262727005107 DNA binding site [nucleotide binding] 262727005108 sequence specific DNA binding site [nucleotide binding]; other site 262727005109 putative cAMP binding site [chemical binding]; other site 262727005110 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 262727005111 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 262727005112 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 262727005113 alphaNTD homodimer interface [polypeptide binding]; other site 262727005114 alphaNTD - beta interaction site [polypeptide binding]; other site 262727005115 alphaNTD - beta' interaction site [polypeptide binding]; other site 262727005116 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 262727005117 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 262727005118 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 262727005119 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 262727005120 RNA binding surface [nucleotide binding]; other site 262727005121 30S ribosomal protein S11; Validated; Region: PRK05309 262727005122 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 262727005123 30S ribosomal protein S13; Region: bact_S13; TIGR03631 262727005124 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 262727005125 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 262727005126 SecY translocase; Region: SecY; pfam00344 262727005127 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 262727005128 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 262727005129 23S rRNA binding site [nucleotide binding]; other site 262727005130 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 262727005131 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 262727005132 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 262727005133 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 262727005134 5S rRNA interface [nucleotide binding]; other site 262727005135 L27 interface [polypeptide binding]; other site 262727005136 23S rRNA interface [nucleotide binding]; other site 262727005137 L5 interface [polypeptide binding]; other site 262727005138 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 262727005139 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 262727005140 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 262727005141 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 262727005142 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 262727005143 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 262727005144 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 262727005145 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 262727005146 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 262727005147 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 262727005148 RNA binding site [nucleotide binding]; other site 262727005149 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 262727005150 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 262727005151 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 262727005152 23S rRNA interface [nucleotide binding]; other site 262727005153 putative translocon interaction site; other site 262727005154 signal recognition particle (SRP54) interaction site; other site 262727005155 L23 interface [polypeptide binding]; other site 262727005156 trigger factor interaction site; other site 262727005157 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 262727005158 23S rRNA interface [nucleotide binding]; other site 262727005159 5S rRNA interface [nucleotide binding]; other site 262727005160 putative antibiotic binding site [chemical binding]; other site 262727005161 L25 interface [polypeptide binding]; other site 262727005162 L27 interface [polypeptide binding]; other site 262727005163 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 262727005164 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 262727005165 G-X-X-G motif; other site 262727005166 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 262727005167 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 262727005168 protein-rRNA interface [nucleotide binding]; other site 262727005169 putative translocon binding site; other site 262727005170 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 262727005171 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 262727005172 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 262727005173 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 262727005174 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 262727005175 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 262727005176 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 262727005177 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 262727005178 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 262727005179 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 262727005180 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 262727005181 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727005182 Walker A/P-loop; other site 262727005183 ATP binding site [chemical binding]; other site 262727005184 Q-loop/lid; other site 262727005185 ABC transporter signature motif; other site 262727005186 Walker B; other site 262727005187 D-loop; other site 262727005188 H-loop/switch region; other site 262727005189 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 262727005190 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 262727005191 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 262727005192 P loop; other site 262727005193 GTP binding site [chemical binding]; other site 262727005194 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 262727005195 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 262727005196 S-adenosylmethionine binding site [chemical binding]; other site 262727005197 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 262727005198 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 262727005199 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK01792 262727005200 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 262727005201 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 262727005202 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 262727005203 active site 262727005204 (T/H)XGH motif; other site 262727005205 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 262727005206 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 262727005207 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 262727005208 active site 262727005209 metal binding site [ion binding]; metal-binding site 262727005210 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 262727005211 murein transglycosylase C; Provisional; Region: mltC; PRK11671 262727005212 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 262727005213 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 262727005214 N-acetyl-D-glucosamine binding site [chemical binding]; other site 262727005215 catalytic residue [active] 262727005216 oxidative damage protection protein; Provisional; Region: PRK05408 262727005217 adenine DNA glycosylase; Provisional; Region: PRK10880 262727005218 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 262727005219 minor groove reading motif; other site 262727005220 helix-hairpin-helix signature motif; other site 262727005221 substrate binding pocket [chemical binding]; other site 262727005222 active site 262727005223 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 262727005224 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 262727005225 DNA binding and oxoG recognition site [nucleotide binding] 262727005226 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 262727005227 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 262727005228 catalytic core [active] 262727005229 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 262727005230 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 262727005231 Peptidase family M23; Region: Peptidase_M23; pfam01551 262727005232 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 262727005233 NodB motif; other site 262727005234 putative active site [active] 262727005235 putative catalytic site [active] 262727005236 Zn binding site [ion binding]; other site 262727005237 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 262727005238 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 262727005239 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 262727005240 dimerization interface [polypeptide binding]; other site 262727005241 ATP binding site [chemical binding]; other site 262727005242 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 262727005243 dimerization interface [polypeptide binding]; other site 262727005244 ATP binding site [chemical binding]; other site 262727005245 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 262727005246 putative active site [active] 262727005247 catalytic triad [active] 262727005248 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 262727005249 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 262727005250 dimer interface [polypeptide binding]; other site 262727005251 catalytic triad [active] 262727005252 peroxidatic and resolving cysteines [active] 262727005253 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 262727005254 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 262727005255 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 262727005256 LexA repressor; Validated; Region: PRK00215 262727005257 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 262727005258 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 262727005259 Catalytic site [active] 262727005260 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 262727005261 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 262727005262 putative acyl-acceptor binding pocket; other site 262727005263 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 262727005264 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 262727005265 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 262727005266 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 262727005267 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 262727005268 active site 262727005269 homotetramer interface [polypeptide binding]; other site 262727005270 homodimer interface [polypeptide binding]; other site 262727005271 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 262727005272 active site residue [active] 262727005273 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 262727005274 SecA binding site; other site 262727005275 Preprotein binding site; other site 262727005276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 262727005277 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 262727005278 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 262727005279 active site 262727005280 substrate binding site [chemical binding]; other site 262727005281 metal binding site [ion binding]; metal-binding site 262727005282 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 262727005283 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 262727005284 putative active site [active] 262727005285 putative PHP Thumb interface [polypeptide binding]; other site 262727005286 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 262727005287 generic binding surface II; other site 262727005288 generic binding surface I; other site 262727005289 threonine dehydratase; Reviewed; Region: PRK09224 262727005290 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 262727005291 tetramer interface [polypeptide binding]; other site 262727005292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 262727005293 catalytic residue [active] 262727005294 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 262727005295 putative Ile/Val binding site [chemical binding]; other site 262727005296 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 262727005297 putative Ile/Val binding site [chemical binding]; other site 262727005298 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 262727005299 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 262727005300 PYR/PP interface [polypeptide binding]; other site 262727005301 dimer interface [polypeptide binding]; other site 262727005302 TPP binding site [chemical binding]; other site 262727005303 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 262727005304 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 262727005305 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 262727005306 Na2 binding site [ion binding]; other site 262727005307 putative substrate binding site 1 [chemical binding]; other site 262727005308 Na binding site 1 [ion binding]; other site 262727005309 putative substrate binding site 2 [chemical binding]; other site 262727005310 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 262727005311 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 262727005312 putative active site [active] 262727005313 putative metal binding site [ion binding]; other site 262727005314 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 262727005315 putative acyl-acceptor binding pocket; other site 262727005316 FtsI repressor; Provisional; Region: PRK10883 262727005317 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 262727005318 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 262727005319 OstA-like protein; Region: OstA; pfam03968 262727005320 Organic solvent tolerance protein; Region: OstA_C; pfam04453 262727005321 prolyl-tRNA synthetase; Provisional; Region: PRK09194 262727005322 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 262727005323 dimer interface [polypeptide binding]; other site 262727005324 motif 1; other site 262727005325 active site 262727005326 motif 2; other site 262727005327 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 262727005328 putative deacylase active site [active] 262727005329 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 262727005330 active site 262727005331 motif 3; other site 262727005332 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 262727005333 anticodon binding site; other site 262727005334 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 262727005335 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 262727005336 ATP binding site [chemical binding]; other site 262727005337 putative Mg++ binding site [ion binding]; other site 262727005338 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 262727005339 nucleotide binding region [chemical binding]; other site 262727005340 ATP-binding site [chemical binding]; other site 262727005341 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 262727005342 Helicase and RNase D C-terminal; Region: HRDC; smart00341 262727005343 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 262727005344 putative iron binding site [ion binding]; other site 262727005345 diaminopimelate decarboxylase; Region: lysA; TIGR01048 262727005346 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 262727005347 active site 262727005348 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 262727005349 substrate binding site [chemical binding]; other site 262727005350 catalytic residues [active] 262727005351 dimer interface [polypeptide binding]; other site 262727005352 transcriptional regulator NarP; Provisional; Region: PRK10403 262727005353 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 262727005354 active site 262727005355 phosphorylation site [posttranslational modification] 262727005356 intermolecular recognition site; other site 262727005357 dimerization interface [polypeptide binding]; other site 262727005358 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 262727005359 DNA binding residues [nucleotide binding] 262727005360 dimerization interface [polypeptide binding]; other site 262727005361 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 262727005362 Der GTPase activator (YihI); Region: YihI; cl01172 262727005363 Cation transport protein; Region: TrkH; cl17365 262727005364 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 262727005365 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 262727005366 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 262727005367 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 262727005368 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 262727005369 CPxP motif; other site 262727005370 heat shock protein HtpX; Provisional; Region: PRK05457 262727005371 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 262727005372 homotrimer interaction site [polypeptide binding]; other site 262727005373 putative active site [active] 262727005374 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 262727005375 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 262727005376 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 262727005377 putative homodimer interface [polypeptide binding]; other site 262727005378 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 262727005379 heterodimer interface [polypeptide binding]; other site 262727005380 homodimer interface [polypeptide binding]; other site 262727005381 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 262727005382 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 262727005383 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 262727005384 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 262727005385 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 262727005386 Walker A motif; other site 262727005387 ATP binding site [chemical binding]; other site 262727005388 Walker B motif; other site 262727005389 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 262727005390 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 262727005391 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 262727005392 oligomer interface [polypeptide binding]; other site 262727005393 active site residues [active] 262727005394 trigger factor; Provisional; Region: tig; PRK01490 262727005395 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 262727005396 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 262727005397 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 262727005398 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 262727005399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 262727005400 RelB antitoxin; Region: RelB; pfam04221 262727005401 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 262727005402 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 262727005403 G1 box; other site 262727005404 putative GEF interaction site [polypeptide binding]; other site 262727005405 GTP/Mg2+ binding site [chemical binding]; other site 262727005406 Switch I region; other site 262727005407 G2 box; other site 262727005408 G3 box; other site 262727005409 Switch II region; other site 262727005410 G4 box; other site 262727005411 G5 box; other site 262727005412 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 262727005413 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 262727005414 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 262727005415 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in RGS (regulator of G-protein signaling) proteins of the subfamily R7. This subgroup contains RGS7, RGS6, RGS9 and RGS11. They share a common domain architecture, containing, beside the RGS domain; Region: DEP_RGS7-like; cd04450 262727005416 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 262727005417 selenocysteine synthase; Provisional; Region: PRK04311 262727005418 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 262727005419 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 262727005420 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 262727005421 catalytic residue [active] 262727005422 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 262727005423 MutS domain I; Region: MutS_I; pfam01624 262727005424 MutS domain II; Region: MutS_II; pfam05188 262727005425 MutS domain III; Region: MutS_III; pfam05192 262727005426 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 262727005427 Walker A/P-loop; other site 262727005428 ATP binding site [chemical binding]; other site 262727005429 Q-loop/lid; other site 262727005430 ABC transporter signature motif; other site 262727005431 Walker B; other site 262727005432 D-loop; other site 262727005433 H-loop/switch region; other site 262727005434 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 262727005435 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 262727005436 Peptidase family M23; Region: Peptidase_M23; pfam01551 262727005437 Predicted membrane protein [Function unknown]; Region: COG1238 262727005438 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 262727005439 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 262727005440 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 262727005441 Permutation of conserved domain; other site 262727005442 active site 262727005443 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 262727005444 RNase E inhibitor protein; Provisional; Region: PRK11191 262727005445 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 262727005446 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 262727005447 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 262727005448 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 262727005449 Surface antigen; Region: Bac_surface_Ag; pfam01103 262727005450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 262727005451 Family of unknown function (DUF490); Region: DUF490; pfam04357 262727005452 exopolyphosphatase; Region: exo_poly_only; TIGR03706 262727005453 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 262727005454 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 262727005455 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 262727005456 probable active site [active] 262727005457 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 262727005458 ketol-acid reductoisomerase; Validated; Region: PRK05225 262727005459 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 262727005460 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 262727005461 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 262727005462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 262727005463 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 262727005464 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 262727005465 putative dimerization interface [polypeptide binding]; other site 262727005466 rarD protein; Region: rarD; TIGR00688 262727005467 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 262727005468 active site residue [active] 262727005469 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 262727005470 triosephosphate isomerase; Provisional; Region: PRK14567 262727005471 substrate binding site [chemical binding]; other site 262727005472 dimer interface [polypeptide binding]; other site 262727005473 catalytic triad [active] 262727005474 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 262727005475 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 262727005476 active site 262727005477 Int/Topo IB signature motif; other site 262727005478 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 262727005479 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 262727005480 metal binding site [ion binding]; metal-binding site 262727005481 dimer interface [polypeptide binding]; other site 262727005482 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 262727005483 active site 262727005484 glycerol kinase; Provisional; Region: glpK; PRK00047 262727005485 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 262727005486 N- and C-terminal domain interface [polypeptide binding]; other site 262727005487 active site 262727005488 MgATP binding site [chemical binding]; other site 262727005489 catalytic site [active] 262727005490 metal binding site [ion binding]; metal-binding site 262727005491 glycerol binding site [chemical binding]; other site 262727005492 homotetramer interface [polypeptide binding]; other site 262727005493 homodimer interface [polypeptide binding]; other site 262727005494 FBP binding site [chemical binding]; other site 262727005495 protein IIAGlc interface [polypeptide binding]; other site 262727005496 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 262727005497 amphipathic channel; other site 262727005498 Asn-Pro-Ala signature motifs; other site 262727005499 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 262727005500 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 262727005501 active site 262727005502 catalytic site [active] 262727005503 metal binding site [ion binding]; metal-binding site 262727005504 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 262727005505 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 262727005506 putative substrate translocation pore; other site 262727005507 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 262727005508 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 262727005509 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 262727005510 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 262727005511 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 262727005512 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 262727005513 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 262727005514 Cysteine-rich domain; Region: CCG; pfam02754 262727005515 Cysteine-rich domain; Region: CCG; pfam02754 262727005516 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 262727005517 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 262727005518 Walker A/P-loop; other site 262727005519 ATP binding site [chemical binding]; other site 262727005520 Q-loop/lid; other site 262727005521 ABC transporter signature motif; other site 262727005522 Walker B; other site 262727005523 D-loop; other site 262727005524 H-loop/switch region; other site 262727005525 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 262727005526 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 262727005527 siderophore binding site; other site 262727005528 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 262727005529 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 262727005530 ABC-ATPase subunit interface; other site 262727005531 dimer interface [polypeptide binding]; other site 262727005532 putative PBP binding regions; other site 262727005533 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 262727005534 ABC-ATPase subunit interface; other site 262727005535 dimer interface [polypeptide binding]; other site 262727005536 putative PBP binding regions; other site 262727005537 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 262727005538 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 262727005539 N-terminal plug; other site 262727005540 ligand-binding site [chemical binding]; other site 262727005541 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 262727005542 active site 262727005543 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 262727005544 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 262727005545 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 262727005546 substrate binding site; other site 262727005547 dimer interface; other site 262727005548 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 262727005549 homotrimer interaction site [polypeptide binding]; other site 262727005550 zinc binding site [ion binding]; other site 262727005551 CDP-binding sites; other site 262727005552 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 262727005553 putative active site [active] 262727005554 dimerization interface [polypeptide binding]; other site 262727005555 putative tRNAtyr binding site [nucleotide binding]; other site 262727005556 FMN-binding protein MioC; Provisional; Region: PRK09004 262727005557 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 262727005558 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 262727005559 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 262727005560 putative active site [active] 262727005561 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 262727005562 non-specific DNA binding site [nucleotide binding]; other site 262727005563 salt bridge; other site 262727005564 sequence-specific DNA binding site [nucleotide binding]; other site 262727005565 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 262727005566 HipA N-terminal domain; Region: Couple_hipA; pfam13657 262727005567 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 262727005568 HipA-like N-terminal domain; Region: HipA_N; pfam07805 262727005569 HipA-like C-terminal domain; Region: HipA_C; pfam07804 262727005570 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 262727005571 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 262727005572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727005573 Walker A/P-loop; other site 262727005574 ATP binding site [chemical binding]; other site 262727005575 Q-loop/lid; other site 262727005576 ABC transporter signature motif; other site 262727005577 Walker B; other site 262727005578 D-loop; other site 262727005579 H-loop/switch region; other site 262727005580 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 262727005581 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 262727005582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262727005583 Walker A/P-loop; other site 262727005584 ATP binding site [chemical binding]; other site 262727005585 Q-loop/lid; other site 262727005586 ABC transporter signature motif; other site 262727005587 Walker B; other site 262727005588 D-loop; other site 262727005589 H-loop/switch region; other site 262727005590 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 262727005591 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 262727005592 ligand-binding site [chemical binding]; other site 262727005593 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 262727005594 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 262727005595 non-specific DNA binding site [nucleotide binding]; other site 262727005596 salt bridge; other site 262727005597 sequence-specific DNA binding site [nucleotide binding]; other site 262727005598 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 262727005599 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 262727005600 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 262727005601 ABC transporter; Region: ABC_tran_2; pfam12848 262727005602 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 262727005603 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 262727005604 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 262727005605 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 262727005606 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 262727005607 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 262727005608 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 262727005609 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 262727005610 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 262727005611 shikimate binding site; other site 262727005612 NAD(P) binding site [chemical binding]; other site 262727005613 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 262727005614 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 262727005615 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 262727005616 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 262727005617 putative metal binding site; other site 262727005618 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 262727005619 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 262727005620 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 262727005621 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 262727005622 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 262727005623 active site 262727005624 (T/H)XGH motif; other site 262727005625 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 262727005626 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 262727005627 Part of AAA domain; Region: AAA_19; pfam13245 262727005628 Family description; Region: UvrD_C_2; pfam13538 262727005629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 262727005630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 262727005631 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 262727005632 putative effector binding pocket; other site 262727005633 dimerization interface [polypeptide binding]; other site 262727005634 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 262727005635 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 262727005636 MgtC family; Region: MgtC; pfam02308 262727005637 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 262727005638 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 262727005639 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 262727005640 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 262727005641 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 262727005642 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 262727005643 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 262727005644 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 262727005645 molybdopterin cofactor binding site [chemical binding]; other site 262727005646 substrate binding site [chemical binding]; other site 262727005647 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 262727005648 molybdopterin cofactor binding site; other site 262727005649 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 262727005650 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 262727005651 Substrate binding site; other site 262727005652 Mg++ binding site; other site 262727005653 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 262727005654 active site 262727005655 substrate binding site [chemical binding]; other site 262727005656 CoA binding site [chemical binding]; other site 262727005657 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 262727005658 core dimer interface [polypeptide binding]; other site 262727005659 peripheral dimer interface [polypeptide binding]; other site 262727005660 L10 interface [polypeptide binding]; other site 262727005661 L11 interface [polypeptide binding]; other site 262727005662 putative EF-Tu interaction site [polypeptide binding]; other site 262727005663 putative EF-G interaction site [polypeptide binding]; other site 262727005664 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 262727005665 23S rRNA interface [nucleotide binding]; other site 262727005666 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 262727005667 adenylosuccinate lyase; Provisional; Region: PRK09285 262727005668 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 262727005669 tetramer interface [polypeptide binding]; other site 262727005670 active site 262727005671 Uncharacterized protein involved in purine metabolism [General function prediction only]; Region: COG2915 262727005672 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 262727005673 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 262727005674 active site 262727005675 HIGH motif; other site 262727005676 dimer interface [polypeptide binding]; other site 262727005677 KMSKS motif; other site 262727005678 conserved hypothetical protein; Region: TIGR00743 262727005679 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 262727005680 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 262727005681 FMN binding site [chemical binding]; other site 262727005682 active site 262727005683 catalytic residues [active] 262727005684 substrate binding site [chemical binding]; other site 262727005685 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 262727005686 elongation factor Tu; Reviewed; Region: PRK00049 262727005687 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 262727005688 G1 box; other site 262727005689 GEF interaction site [polypeptide binding]; other site 262727005690 GTP/Mg2+ binding site [chemical binding]; other site 262727005691 Switch I region; other site 262727005692 G2 box; other site 262727005693 G3 box; other site 262727005694 Switch II region; other site 262727005695 G4 box; other site 262727005696 G5 box; other site 262727005697 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 262727005698 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 262727005699 Antibiotic Binding Site [chemical binding]; other site 262727005700 pantothenate kinase; Provisional; Region: PRK05439 262727005701 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 262727005702 ATP-binding site [chemical binding]; other site 262727005703 CoA-binding site [chemical binding]; other site 262727005704 Mg2+-binding site [ion binding]; other site 262727005705 anti-sigma E factor; Provisional; Region: rseB; PRK09455 262727005706 MucB/RseB family; Region: MucB_RseB; pfam03888 262727005707 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 262727005708 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 262727005709 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 262727005710 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 262727005711 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262727005712 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 262727005713 DNA binding residues [nucleotide binding] 262727005714 Uncharacterized conserved protein [Function unknown]; Region: COG2938 262727005715 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 262727005716 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 262727005717 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 262727005718 TrkA-N domain; Region: TrkA_N; pfam02254 262727005719 TrkA-C domain; Region: TrkA_C; pfam02080 262727005720 TrkA-N domain; Region: TrkA_N; pfam02254 262727005721 TrkA-C domain; Region: TrkA_C; pfam02080 262727005722 16S rRNA methyltransferase B; Provisional; Region: PRK10901 262727005723 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 262727005724 putative RNA binding site [nucleotide binding]; other site 262727005725 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 262727005726 S-adenosylmethionine binding site [chemical binding]; other site 262727005727 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 262727005728 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 262727005729 putative active site [active] 262727005730 substrate binding site [chemical binding]; other site 262727005731 putative cosubstrate binding site; other site 262727005732 catalytic site [active] 262727005733 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 262727005734 substrate binding site [chemical binding]; other site 262727005735 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 262727005736 active site 262727005737 catalytic residues [active] 262727005738 metal binding site [ion binding]; metal-binding site 262727005739 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 262727005740 TfoX C-terminal domain; Region: TfoX_C; pfam04994 262727005741 recombinase A; Provisional; Region: recA; PRK09354 262727005742 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 262727005743 hexamer interface [polypeptide binding]; other site 262727005744 Walker A motif; other site 262727005745 ATP binding site [chemical binding]; other site 262727005746 Walker B motif; other site 262727005747 recombination regulator RecX; Reviewed; Region: recX; PRK00117 262727005748 chromosome condensation membrane protein; Provisional; Region: PRK14196 262727005749 putative hydrolase; Provisional; Region: PRK10976 262727005750 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 262727005751 active site 262727005752 motif I; other site 262727005753 motif II; other site 262727005754 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 262727005755 ornithine carbamoyltransferase; Provisional; Region: PRK01713 262727005756 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 262727005757 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 262727005758 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 262727005759 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 262727005760 putative substrate binding site [chemical binding]; other site 262727005761 nucleotide binding site [chemical binding]; other site 262727005762 nucleotide binding site [chemical binding]; other site 262727005763 homodimer interface [polypeptide binding]; other site 262727005764 Predicted membrane protein [Function unknown]; Region: COG1288 262727005765 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 262727005766 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 262727005767 active site pocket [active] 262727005768 oxyanion hole [active] 262727005769 catalytic triad [active] 262727005770 active site nucleophile [active] 262727005771 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 262727005772 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 262727005773 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 262727005774 putative metal binding site [ion binding]; other site 262727005775 dimer interface [polypeptide binding]; other site 262727005776 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 262727005777 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 262727005778 active site 262727005779 metal binding site [ion binding]; metal-binding site 262727005780 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872