-- dump date 20120504_144513 -- class Genbank::misc_feature -- table misc_feature_note -- id note 546269000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 546269000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 546269000003 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 546269000004 Walker A motif; other site 546269000005 ATP binding site [chemical binding]; other site 546269000006 Walker B motif; other site 546269000007 arginine finger; other site 546269000008 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 546269000009 DnaA box-binding interface [nucleotide binding]; other site 546269000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 546269000011 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 546269000012 putative DNA binding surface [nucleotide binding]; other site 546269000013 dimer interface [polypeptide binding]; other site 546269000014 beta-clamp/clamp loader binding surface; other site 546269000015 beta-clamp/translesion DNA polymerase binding surface; other site 546269000016 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 546269000017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269000018 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 546269000019 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 546269000020 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 546269000021 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 546269000022 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 546269000023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 546269000024 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269000025 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 546269000026 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 546269000027 Walker A/P-loop; other site 546269000028 ATP binding site [chemical binding]; other site 546269000029 Q-loop/lid; other site 546269000030 ABC transporter signature motif; other site 546269000031 Walker B; other site 546269000032 D-loop; other site 546269000033 H-loop/switch region; other site 546269000034 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546269000035 FtsX-like permease family; Region: FtsX; cl15850 546269000036 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 546269000037 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546269000038 FtsX-like permease family; Region: FtsX; cl15850 546269000039 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 546269000040 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 546269000041 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 546269000042 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 546269000043 recombination protein F; Reviewed; Region: recF; PRK00064 546269000044 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 546269000045 Walker A/P-loop; other site 546269000046 ATP binding site [chemical binding]; other site 546269000047 Q-loop/lid; other site 546269000048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269000049 ABC transporter signature motif; other site 546269000050 Walker B; other site 546269000051 D-loop; other site 546269000052 H-loop/switch region; other site 546269000053 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 546269000054 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 546269000055 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 546269000056 anchoring element; other site 546269000057 dimer interface [polypeptide binding]; other site 546269000058 ATP binding site [chemical binding]; other site 546269000059 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 546269000060 active site 546269000061 putative metal-binding site [ion binding]; other site 546269000062 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 546269000063 DNA gyrase subunit A; Validated; Region: PRK05560 546269000064 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 546269000065 CAP-like domain; other site 546269000066 active site 546269000067 primary dimer interface [polypeptide binding]; other site 546269000068 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546269000069 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546269000070 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546269000071 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546269000072 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546269000073 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546269000074 YtxH-like protein; Region: YtxH; cl02079 546269000075 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 546269000076 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 546269000077 anti sigma factor interaction site; other site 546269000078 regulatory phosphorylation site [posttranslational modification]; other site 546269000079 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 546269000080 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 546269000081 ATP binding site [chemical binding]; other site 546269000082 Mg2+ binding site [ion binding]; other site 546269000083 G-X-G motif; other site 546269000084 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 546269000085 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 546269000086 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 546269000087 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 546269000088 DNA binding residues [nucleotide binding] 546269000089 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 546269000090 active site 546269000091 metal binding site [ion binding]; metal-binding site 546269000092 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 546269000093 putative FMN binding site [chemical binding]; other site 546269000094 NADPH bind site [chemical binding]; other site 546269000095 prolyl-tRNA synthetase; Provisional; Region: PRK09194 546269000096 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 formation of...; Region: ProRS_core_prok; cd00779 546269000097 dimer interface [polypeptide binding]; other site 546269000098 motif 1; other site 546269000099 active site 546269000100 motif 2; other site 546269000101 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 546269000102 putative deacylase active site [active] 546269000103 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 546269000104 active site 546269000105 motif 3; other site 546269000106 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 546269000107 anticodon binding site; other site 546269000108 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 546269000109 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 546269000110 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 546269000111 homodimer interface [polypeptide binding]; other site 546269000112 NADP binding site [chemical binding]; other site 546269000113 substrate binding site [chemical binding]; other site 546269000114 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 546269000115 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 546269000116 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269000117 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 546269000118 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 546269000119 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 546269000120 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 546269000121 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 546269000122 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 546269000123 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 546269000124 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 546269000125 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 546269000126 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 546269000127 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 546269000128 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 546269000129 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 546269000130 additional DNA contacts [nucleotide binding]; other site 546269000131 mismatch recognition site; other site 546269000132 active site 546269000133 zinc binding site [ion binding]; other site 546269000134 DNA intercalation site [nucleotide binding]; other site 546269000135 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 546269000136 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 546269000137 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 546269000138 cofactor binding site; other site 546269000139 DNA binding site [nucleotide binding] 546269000140 substrate interaction site [chemical binding]; other site 546269000141 Beta propeller domain; Region: Beta_propel; pfam09826 546269000142 QueT transporter; Region: QueT; cl01932 546269000143 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 546269000144 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 546269000145 active site 546269000146 HIGH motif; other site 546269000147 dimer interface [polypeptide binding]; other site 546269000148 KMSKS motif; other site 546269000149 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 546269000150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269000151 EamA-like transporter family; Region: EamA; cl01037 546269000152 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 546269000153 EamA-like transporter family; Region: EamA; cl01037 546269000154 S-layer homology domain; Region: SLH; pfam00395 546269000155 S-layer homology domain; Region: SLH; pfam00395 546269000156 S-layer homology domain; Region: SLH; pfam00395 546269000157 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 546269000158 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 546269000159 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 546269000160 G1 box; other site 546269000161 GTP/Mg2+ binding site [chemical binding]; other site 546269000162 Switch I region; other site 546269000163 G2 box; other site 546269000164 Switch II region; other site 546269000165 G3 box; other site 546269000166 G4 box; other site 546269000167 G5 box; other site 546269000168 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 546269000169 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 546269000170 FeS/SAM binding site; other site 546269000171 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 546269000172 biotin synthase; Provisional; Region: PRK07094 546269000173 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; cl15377 546269000174 FeS/SAM binding site; other site 546269000175 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 546269000176 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 546269000177 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 546269000178 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 546269000179 CTP synthetase; Validated; Region: pyrG; PRK05380 546269000180 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 546269000181 Catalytic site [active] 546269000182 active site 546269000183 UTP binding site [chemical binding]; other site 546269000184 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 546269000185 active site 546269000186 putative oxyanion hole; other site 546269000187 catalytic triad [active] 546269000188 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 546269000189 4Fe-4S binding domain; Region: Fer4; cl02805 546269000190 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 546269000191 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 546269000192 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 546269000193 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 546269000194 motif II; other site 546269000195 Predicted membrane protein [Function unknown]; Region: COG2860 546269000196 UPF0126 domain; Region: UPF0126; pfam03458 546269000197 UPF0126 domain; Region: UPF0126; pfam03458 546269000198 Amino acid permease; Region: AA_permease_2; pfam13520 546269000199 Isochorismatase family; Region: Isochorismatase; pfam00857 546269000200 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 546269000201 catalytic triad [active] 546269000202 conserved cis-peptide bond; other site 546269000203 Integrase core domain; Region: rve; cl01316 546269000204 hypothetical protein; Reviewed; Region: PRK00024 546269000205 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 546269000206 MPN+ (JAMM) motif; other site 546269000207 Zinc-binding site [ion binding]; other site 546269000208 rod shape-determining protein MreC; Region: MreC; pfam04085 546269000209 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 546269000210 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 546269000211 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 546269000212 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 546269000213 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 546269000214 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 546269000215 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 546269000216 septum site-determining protein MinD; Region: minD_bact; TIGR01968 546269000217 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 546269000218 Switch I; other site 546269000219 Switch II; other site 546269000220 Septum formation topological specificity factor MinE; Region: MinE; cl00538 546269000221 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 546269000222 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546269000223 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 546269000224 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 546269000225 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 546269000226 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 546269000227 dimer interface [polypeptide binding]; other site 546269000228 motif 1; other site 546269000229 active site 546269000230 motif 2; other site 546269000231 motif 3; other site 546269000232 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 546269000233 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 546269000234 putative tRNA-binding site [nucleotide binding]; other site 546269000235 B3/4 domain; Region: B3_4; cl11458 546269000236 tRNA synthetase B5 domain; Region: B5; cl08394 546269000237 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 546269000238 dimer interface [polypeptide binding]; other site 546269000239 motif 1; other site 546269000240 motif 3; other site 546269000241 motif 2; other site 546269000242 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 546269000243 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 546269000244 synthetase active site [active] 546269000245 NTP binding site [chemical binding]; other site 546269000246 metal binding site [ion binding]; metal-binding site 546269000247 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 546269000248 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 546269000249 active site 546269000250 metal binding site [ion binding]; metal-binding site 546269000251 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 546269000252 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 546269000253 CAAX protease self-immunity; Region: Abi; cl00558 546269000254 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 546269000255 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 546269000256 NodB motif; other site 546269000257 putative active site [active] 546269000258 putative catalytic site [active] 546269000259 putative Zn binding site [ion binding]; other site 546269000260 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 546269000261 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 546269000262 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 546269000263 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 546269000264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 546269000265 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 546269000266 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 546269000267 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 546269000268 HIGH motif; other site 546269000269 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 546269000270 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 546269000271 active site 546269000272 KMSKS motif; other site 546269000273 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 546269000274 tRNA binding surface [nucleotide binding]; other site 546269000275 carbamate kinase; Reviewed; Region: PRK12686 546269000276 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 546269000277 putative substrate binding site [chemical binding]; other site 546269000278 nucleotide binding site [chemical binding]; other site 546269000279 nucleotide binding site [chemical binding]; other site 546269000280 homodimer interface [polypeptide binding]; other site 546269000281 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 546269000282 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 546269000283 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 546269000284 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 546269000285 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 546269000286 ATP-grasp domain; Region: ATP-grasp_4; cl03087 546269000287 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 546269000288 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 546269000289 Ligand Binding Site [chemical binding]; other site 546269000290 B3/4 domain; Region: B3_4; cl11458 546269000291 FtsH Extracellular; Region: FtsH_ext; pfam06480 546269000292 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 546269000293 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 546269000294 Walker A motif; other site 546269000295 ATP binding site [chemical binding]; other site 546269000296 Walker B motif; other site 546269000297 arginine finger; other site 546269000298 Peptidase family M41; Region: Peptidase_M41; pfam01434 546269000299 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 546269000300 oligoendopeptidase F; Region: pepF; TIGR00181 546269000301 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 546269000302 active site 546269000303 Zn binding site [ion binding]; other site 546269000304 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 546269000305 A new structural DNA glycosylase; Region: AlkD_like; cd06561 546269000306 active site 546269000307 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 546269000308 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 546269000309 C-terminal peptidase (prc); Region: prc; TIGR00225 546269000310 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 546269000311 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 546269000312 Catalytic dyad [active] 546269000313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269000314 Uncharacterized conserved protein [Function unknown]; Region: COG0327 546269000315 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 546269000316 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 546269000317 RNA/DNA hybrid binding site [nucleotide binding]; other site 546269000318 active site 546269000319 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 546269000320 THUMP domain; Region: THUMP; cl12076 546269000321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269000322 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 546269000323 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 546269000324 putative active site [active] 546269000325 putative metal binding site [ion binding]; other site 546269000326 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 546269000327 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 546269000328 S-adenosylmethionine binding site [chemical binding]; other site 546269000329 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 546269000330 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 546269000331 active site 546269000332 putative substrate binding pocket [chemical binding]; other site 546269000333 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 546269000334 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 546269000335 generic binding surface II; other site 546269000336 generic binding surface I; other site 546269000337 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 546269000338 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 546269000339 substrate binding pocket [chemical binding]; other site 546269000340 chain length determination region; other site 546269000341 substrate-Mg2+ binding site; other site 546269000342 catalytic residues [active] 546269000343 aspartate-rich region 1; other site 546269000344 active site lid residues [active] 546269000345 aspartate-rich region 2; other site 546269000346 Divergent PAP2 family; Region: DUF212; cl00855 546269000347 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 546269000348 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 546269000349 RNA binding surface [nucleotide binding]; other site 546269000350 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 546269000351 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 546269000352 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 546269000353 Walker A/P-loop; other site 546269000354 ATP binding site [chemical binding]; other site 546269000355 Q-loop/lid; other site 546269000356 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 546269000357 ABC transporter signature motif; other site 546269000358 Walker B; other site 546269000359 D-loop; other site 546269000360 H-loop/switch region; other site 546269000361 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 546269000362 dimer interface [polypeptide binding]; other site 546269000363 ADP-ribose binding site [chemical binding]; other site 546269000364 active site 546269000365 nudix motif; other site 546269000366 metal binding site [ion binding]; metal-binding site 546269000367 YceG-like family; Region: YceG; pfam02618 546269000368 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 546269000369 dimerization interface [polypeptide binding]; other site 546269000370 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 546269000371 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 546269000372 S-adenosylmethionine binding site [chemical binding]; other site 546269000373 putative protease; Provisional; Region: PRK15452 546269000374 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 546269000375 Peptidase family U32; Region: Peptidase_U32; cl03113 546269000376 phosphodiesterase; Provisional; Region: PRK12704 546269000377 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546269000378 Zn2+ binding site [ion binding]; other site 546269000379 Mg2+ binding site [ion binding]; other site 546269000380 NAD-dependent deacetylase; Provisional; Region: PRK00481 546269000381 SIR2 family 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-fam; cd01407 546269000382 NAD+ binding site [chemical binding]; other site 546269000383 substrate binding site [chemical binding]; other site 546269000384 Zn binding site [ion binding]; other site 546269000385 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546269000386 Helix-turn-helix domains; Region: HTH; cl00088 546269000387 Integrase core domain; Region: rve; cl01316 546269000388 AIR carboxylase; Region: AIRC; cl00310 546269000389 amidophosphoribosyltransferase; Region: purF; TIGR01134 546269000390 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 546269000391 active site 546269000392 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 546269000393 active site 546269000394 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 546269000395 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 546269000396 dimerization interface [polypeptide binding]; other site 546269000397 putative ATP binding site [chemical binding]; other site 546269000398 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 546269000399 active site 546269000400 cosubstrate binding site; other site 546269000401 substrate binding site [chemical binding]; other site 546269000402 catalytic site [active] 546269000403 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 546269000404 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 546269000405 purine monophosphate binding site [chemical binding]; other site 546269000406 dimer interface [polypeptide binding]; other site 546269000407 putative catalytic residues [active] 546269000408 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 546269000409 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 546269000410 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 546269000411 ATP-grasp domain; Region: ATP-grasp_4; cl03087 546269000412 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 546269000413 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 546269000414 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 546269000415 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 546269000416 dimerization interface [polypeptide binding]; other site 546269000417 ATP binding site [chemical binding]; other site 546269000418 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 546269000419 dimerization interface [polypeptide binding]; other site 546269000420 ATP binding site [chemical binding]; other site 546269000421 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 546269000422 conserved cys residue [active] 546269000423 aspartate aminotransferase; Provisional; Region: PRK07568 546269000424 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 546269000425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269000426 homodimer interface [polypeptide binding]; other site 546269000427 catalytic residue [active] 546269000428 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 546269000429 Ligand Binding Site [chemical binding]; other site 546269000430 Transposase IS200 like; Region: Y1_Tnp; cl00848 546269000431 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 546269000432 metal binding site 2 [ion binding]; metal-binding site 546269000433 putative DNA binding helix; other site 546269000434 metal binding site 1 [ion binding]; metal-binding site 546269000435 dimer interface [polypeptide binding]; other site 546269000436 structural Zn2+ binding site [ion binding]; other site 546269000437 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 546269000438 dimerization interface [polypeptide binding]; other site 546269000439 putative DNA binding site [nucleotide binding]; other site 546269000440 putative Zn2+ binding site [ion binding]; other site 546269000441 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; cl00207 546269000442 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 546269000443 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 546269000444 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 546269000445 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 546269000446 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 546269000447 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 546269000448 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 546269000449 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 546269000450 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 546269000451 NodB motif; other site 546269000452 active site 546269000453 catalytic site [active] 546269000454 Zn binding site [ion binding]; other site 546269000455 GTPase CgtA; Reviewed; Region: obgE; PRK12297 546269000456 GTP1/OBG; Region: GTP1_OBG; pfam01018 546269000457 Obg GTPase; Region: Obg; cd01898 546269000458 G1 box; other site 546269000459 GTP/Mg2+ binding site [chemical binding]; other site 546269000460 Switch I region; other site 546269000461 G2 box; other site 546269000462 G3 box; other site 546269000463 Switch II region; other site 546269000464 G4 box; other site 546269000465 G5 box; other site 546269000466 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 546269000467 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 546269000468 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 546269000469 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 546269000470 nucleotide binding pocket [chemical binding]; other site 546269000471 K-X-D-G motif; other site 546269000472 catalytic site [active] 546269000473 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 546269000474 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 546269000475 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 546269000476 Dimer interface [polypeptide binding]; other site 546269000477 BRCT sequence motif; other site 546269000478 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 546269000479 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 546269000480 Amidase; Region: Amidase; cl11426 546269000481 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 546269000482 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 546269000483 GatB domain; Region: GatB_Yqey; cl11497 546269000484 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 546269000485 motif 1; other site 546269000486 dimer interface [polypeptide binding]; other site 546269000487 active site 546269000488 motif 2; other site 546269000489 motif 3; other site 546269000490 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 546269000491 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 546269000492 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546269000493 catalytic residue [active] 546269000494 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 546269000495 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 546269000496 pyruvate carboxylase; Reviewed; Region: PRK12999 546269000497 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 546269000498 ATP-grasp domain; Region: ATP-grasp_4; cl03087 546269000499 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 546269000500 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 546269000501 active site 546269000502 catalytic residues [active] 546269000503 metal binding site [ion binding]; metal-binding site 546269000504 homodimer binding site [polypeptide binding]; other site 546269000505 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 546269000506 carboxyltransferase (CT) interaction site; other site 546269000507 biotinylation site [posttranslational modification]; other site 546269000508 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 546269000509 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 546269000510 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 546269000511 DHH family; Region: DHH; pfam01368 546269000512 DHHA1 domain; Region: DHHA1; pfam02272 546269000513 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 546269000514 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 546269000515 active site 546269000516 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 546269000517 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546269000518 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 546269000519 synthetase active site [active] 546269000520 NTP binding site [chemical binding]; other site 546269000521 metal binding site [ion binding]; metal-binding site 546269000522 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 546269000523 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 546269000524 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 546269000525 putative active site [active] 546269000526 dimerization interface [polypeptide binding]; other site 546269000527 putative tRNAtyr binding site [nucleotide binding]; other site 546269000528 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546269000529 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 546269000530 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 546269000531 dimer interface [polypeptide binding]; other site 546269000532 anticodon binding site; other site 546269000533 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 546269000534 homodimer interface [polypeptide binding]; other site 546269000535 motif 1; other site 546269000536 active site 546269000537 motif 2; other site 546269000538 GAD domain; Region: GAD; pfam02938 546269000539 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 546269000540 active site 546269000541 motif 3; other site 546269000542 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 546269000543 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 546269000544 dimer interface [polypeptide binding]; other site 546269000545 active site 546269000546 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 546269000547 substrate binding site [chemical binding]; other site 546269000548 catalytic residue [active] 546269000549 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 546269000550 gamma-glutamyl kinase; Provisional; Region: PRK05429 546269000551 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 546269000552 nucleotide binding site [chemical binding]; other site 546269000553 homotetrameric interface [polypeptide binding]; other site 546269000554 putative phosphate binding site [ion binding]; other site 546269000555 putative allosteric binding site; other site 546269000556 PUA domain; Region: PUA; cl00607 546269000557 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 546269000558 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 546269000559 putative catalytic cysteine [active] 546269000560 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 546269000561 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 546269000562 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 546269000563 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 546269000564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269000565 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 546269000566 Transposase IS200 like; Region: Y1_Tnp; cl00848 546269000567 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 546269000568 catalytic residues [active] 546269000569 HPr kinase/phosphorylase; Provisional; Region: PRK05428 546269000570 DRTGG domain; Region: DRTGG; cl12147 546269000571 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 546269000572 active site 546269000573 homohexamer subunit interaction site [polypeptide binding]; other site 546269000574 Hpr binding site; other site 546269000575 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 546269000576 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 546269000577 active site 546269000578 NTP binding site [chemical binding]; other site 546269000579 metal binding triad [ion binding]; metal-binding site 546269000580 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 546269000581 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546269000582 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 546269000583 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269000584 Family description; Region: UvrD_C_2; cl15862 546269000585 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 546269000586 trimer interface [polypeptide binding]; other site 546269000587 active site 546269000588 Arginine degradation protein (predicted deacylase) [Amino acid transport and metabolism]; Region: RocB; COG4187 546269000589 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 546269000590 putative metal binding site [ion binding]; other site 546269000591 putative dimer interface [polypeptide binding]; other site 546269000592 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 546269000593 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 546269000594 oligomer interface [polypeptide binding]; other site 546269000595 putative active site [active] 546269000596 metal binding site [ion binding]; metal-binding site 546269000597 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 546269000598 active site 546269000599 uracil-xanthine permease; Region: ncs2; TIGR00801 546269000600 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 546269000601 Transposase IS200 like; Region: Y1_Tnp; cl00848 546269000602 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546269000603 Helix-turn-helix domains; Region: HTH; cl00088 546269000604 Integrase core domain; Region: rve; cl01316 546269000605 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 546269000606 16S rRNA methyltransferase B; Provisional; Region: PRK14902 546269000607 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 546269000608 putative RNA binding site [nucleotide binding]; other site 546269000609 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 546269000610 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 546269000611 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 546269000612 FeS/SAM binding site; other site 546269000613 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 546269000614 active site 546269000615 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 546269000616 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 546269000617 active site 546269000618 ATP binding site [chemical binding]; other site 546269000619 substrate binding site [chemical binding]; other site 546269000620 activation loop (A-loop); other site 546269000621 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 546269000622 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 546269000623 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 546269000624 GTPase RsgA; Reviewed; Region: PRK00098 546269000625 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 546269000626 RNA binding site [nucleotide binding]; other site 546269000627 homodimer interface [polypeptide binding]; other site 546269000628 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 546269000629 GTPase/Zn-binding domain interface [polypeptide binding]; other site 546269000630 GTP/Mg2+ binding site [chemical binding]; other site 546269000631 G4 box; other site 546269000632 G5 box; other site 546269000633 G1 box; other site 546269000634 Switch I region; other site 546269000635 G2 box; other site 546269000636 G3 box; other site 546269000637 Switch II region; other site 546269000638 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 546269000639 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 546269000640 substrate binding site [chemical binding]; other site 546269000641 hexamer interface [polypeptide binding]; other site 546269000642 metal binding site [ion binding]; metal-binding site 546269000643 Thiamine pyrophosphokinase; Region: TPK; cd07995 546269000644 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 546269000645 active site 546269000646 dimerization interface [polypeptide binding]; other site 546269000647 thiamine binding site [chemical binding]; other site 546269000648 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 546269000649 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 546269000650 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 546269000651 S-adenosylmethionine binding site [chemical binding]; other site 546269000652 peptide chain release factor 1; Validated; Region: prfA; PRK00591 546269000653 RF-1 domain; Region: RF-1; cl02875 546269000654 RF-1 domain; Region: RF-1; cl02875 546269000655 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 546269000656 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 546269000657 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 546269000658 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 546269000659 active site 546269000660 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 546269000661 Protein of unknown function (DUF464); Region: DUF464; cl01080 546269000662 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 546269000663 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 546269000664 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 546269000665 dimer interface [polypeptide binding]; other site 546269000666 glycine-pyridoxal phosphate binding site [chemical binding]; other site 546269000667 active site 546269000668 folate binding site [chemical binding]; other site 546269000669 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 546269000670 dimer interface [polypeptide binding]; other site 546269000671 pyridoxal binding site [chemical binding]; other site 546269000672 ATP binding site [chemical binding]; other site 546269000673 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 546269000674 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 546269000675 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 546269000676 Walker A motif; other site 546269000677 ATP binding site [chemical binding]; other site 546269000678 Walker B motif; other site 546269000679 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 546269000680 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269000681 Walker A motif; other site 546269000682 ATP binding site [chemical binding]; other site 546269000683 Walker B motif; other site 546269000684 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 546269000685 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546269000686 Helix-turn-helix domains; Region: HTH; cl00088 546269000687 Integrase core domain; Region: rve; cl01316 546269000688 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 546269000689 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 546269000690 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 546269000691 metal ion-dependent adhesion site (MIDAS); other site 546269000692 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 546269000693 Cell division protein FtsA; Region: FtsA; cl11496 546269000694 Competence protein A; Region: Competence_A; pfam11104 546269000695 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 546269000696 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 546269000697 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 546269000698 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 546269000699 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 546269000700 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 546269000701 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 546269000702 excinuclease ABC subunit B; Provisional; Region: PRK05298 546269000703 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 546269000704 ATP binding site [chemical binding]; other site 546269000705 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 546269000706 nucleotide binding region [chemical binding]; other site 546269000707 ATP-binding site [chemical binding]; other site 546269000708 Ultra-violet resistance protein B; Region: UvrB; pfam12344 546269000709 UvrB/uvrC motif; Region: UVR; pfam02151 546269000710 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 546269000711 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 546269000712 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 546269000713 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 546269000714 RecX family; Region: RecX; cl00936 546269000715 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 546269000716 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 546269000717 G1 box; other site 546269000718 putative GEF interaction site [polypeptide binding]; other site 546269000719 GTP/Mg2+ binding site [chemical binding]; other site 546269000720 Switch I region; other site 546269000721 G2 box; other site 546269000722 G3 box; other site 546269000723 Switch II region; other site 546269000724 G4 box; other site 546269000725 G5 box; other site 546269000726 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 546269000727 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 546269000728 NlpC/P60 family; Region: NLPC_P60; cl11438 546269000729 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 546269000730 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 546269000731 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 546269000732 ATP binding site [chemical binding]; other site 546269000733 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 546269000734 active site 546269000735 metal binding site [ion binding]; metal-binding site 546269000736 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 546269000737 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 546269000738 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cl00148 546269000739 CAP-like domain; other site 546269000740 active site 546269000741 primary dimer interface [polypeptide binding]; other site 546269000742 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 546269000743 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 546269000744 ATP binding site [chemical binding]; other site 546269000745 active site 546269000746 substrate binding site [chemical binding]; other site 546269000747 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 546269000748 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 546269000749 Transcriptional regulator; Region: Transcrip_reg; cl00361 546269000750 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 546269000751 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 546269000752 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 546269000753 RNA binding surface [nucleotide binding]; other site 546269000754 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 546269000755 active site 546269000756 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 546269000757 active site 546269000758 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 546269000759 metal binding site 2 [ion binding]; metal-binding site 546269000760 putative DNA binding helix; other site 546269000761 metal binding site 1 [ion binding]; metal-binding site 546269000762 dimer interface [polypeptide binding]; other site 546269000763 structural Zn2+ binding site [ion binding]; other site 546269000764 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 546269000765 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 546269000766 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 546269000767 active site 546269000768 HIGH motif; other site 546269000769 KMSK motif region; other site 546269000770 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 546269000771 tRNA binding surface [nucleotide binding]; other site 546269000772 anticodon binding site; other site 546269000773 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 546269000774 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 546269000775 DNA binding site [nucleotide binding] 546269000776 Int/Topo IB signature motif; other site 546269000777 active site 546269000778 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 546269000779 pyruvate kinase; Provisional; Region: PRK06354 546269000780 domain interfaces; other site 546269000781 active site 546269000782 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 546269000783 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 546269000784 active site 546269000785 ADP/pyrophosphate binding site [chemical binding]; other site 546269000786 dimerization interface [polypeptide binding]; other site 546269000787 allosteric effector site; other site 546269000788 fructose-1,6-bisphosphate binding site; other site 546269000789 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 546269000790 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 546269000791 Protein of unknown function, DUF655; Region: DUF655; pfam04919 546269000792 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 546269000793 generic binding surface I; other site 546269000794 generic binding surface II; other site 546269000795 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 546269000796 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 546269000797 dimerization interface [polypeptide binding]; other site 546269000798 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 546269000799 dimer interface [polypeptide binding]; other site 546269000800 phosphorylation site [posttranslational modification] 546269000801 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 546269000802 ATP binding site [chemical binding]; other site 546269000803 Mg2+ binding site [ion binding]; other site 546269000804 G-X-G motif; other site 546269000805 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 546269000806 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 546269000807 active site 546269000808 phosphorylation site [posttranslational modification] 546269000809 intermolecular recognition site; other site 546269000810 dimerization interface [polypeptide binding]; other site 546269000811 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 546269000812 DNA binding site [nucleotide binding] 546269000813 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 546269000814 DEAD-like helicases superfamily; Region: DEXDc; smart00487 546269000815 ATP binding site [chemical binding]; other site 546269000816 Mg++ binding site [ion binding]; other site 546269000817 motif III; other site 546269000818 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 546269000819 nucleotide binding region [chemical binding]; other site 546269000820 ATP-binding site [chemical binding]; other site 546269000821 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 546269000822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269000823 flavoprotein, HI0933 family; Region: TIGR00275 546269000824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269000825 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 546269000826 putative substrate translocation pore; other site 546269000827 GatB domain; Region: GatB_Yqey; cl11497 546269000828 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 546269000829 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546269000830 Helix-turn-helix domains; Region: HTH; cl00088 546269000831 Integrase core domain; Region: rve; cl01316 546269000832 hypothetical protein; Provisional; Region: PRK05590 546269000833 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 546269000834 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 546269000835 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 546269000836 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 546269000837 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 546269000838 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 546269000839 DNA binding residues [nucleotide binding] 546269000840 DNA primase; Validated; Region: dnaG; PRK05667 546269000841 CHC2 zinc finger; Region: zf-CHC2; cl15369 546269000842 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 546269000843 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 546269000844 active site 546269000845 metal binding site [ion binding]; metal-binding site 546269000846 interdomain interaction site; other site 546269000847 hypothetical protein; Provisional; Region: PRK04435 546269000848 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 546269000849 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 546269000850 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 546269000851 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 546269000852 RNA binding site [nucleotide binding]; other site 546269000853 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 546269000854 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 546269000855 active site 546269000856 substrate binding site [chemical binding]; other site 546269000857 metal binding site [ion binding]; metal-binding site 546269000858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 546269000859 Uncharacterized conserved protein [Function unknown]; Region: COG1624 546269000860 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 546269000861 Chromate transporter; Region: Chromate_transp; pfam02417 546269000862 Chromate transporter; Region: Chromate_transp; pfam02417 546269000863 TPR repeat; Region: TPR_11; pfam13414 546269000864 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 546269000865 binding surface 546269000866 TPR motif; other site 546269000867 Bacterial SH3 domain; Region: SH3_3; cl02551 546269000868 NlpC/P60 family; Region: NLPC_P60; cl11438 546269000869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 546269000870 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 546269000871 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 546269000872 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 546269000873 S-adenosylmethionine binding site [chemical binding]; other site 546269000874 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 546269000875 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 546269000876 active site 546269000877 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 546269000878 IHF dimer interface [polypeptide binding]; other site 546269000879 IHF - DNA interface [nucleotide binding]; other site 546269000880 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 546269000881 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 546269000882 recombinase A; Provisional; Region: recA; PRK09354 546269000883 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 546269000884 hexamer interface [polypeptide binding]; other site 546269000885 Walker A motif; other site 546269000886 ATP binding site [chemical binding]; other site 546269000887 Walker B motif; other site 546269000888 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 546269000889 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 546269000890 putative dimer interface [polypeptide binding]; other site 546269000891 putative anticodon binding site; other site 546269000892 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 546269000893 homodimer interface [polypeptide binding]; other site 546269000894 motif 1; other site 546269000895 motif 2; other site 546269000896 active site 546269000897 motif 3; other site 546269000898 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 546269000899 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 546269000900 active site 546269000901 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 546269000902 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 546269000903 active site 546269000904 HIGH motif; other site 546269000905 KMSKS motif; other site 546269000906 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 546269000907 tRNA binding surface [nucleotide binding]; other site 546269000908 anticodon binding site; other site 546269000909 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 546269000910 dimer interface [polypeptide binding]; other site 546269000911 putative tRNA-binding site [nucleotide binding]; other site 546269000912 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 546269000913 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 546269000914 Amidinotransferase; Region: Amidinotransf; cl12043 546269000915 PemK-like protein; Region: PemK; cl00995 546269000916 alanine racemase; Reviewed; Region: alr; PRK00053 546269000917 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 546269000918 active site 546269000919 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 546269000920 dimer interface [polypeptide binding]; other site 546269000921 substrate binding site [chemical binding]; other site 546269000922 catalytic residues [active] 546269000923 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 546269000924 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 546269000925 GIY-YIG motif/motif A; other site 546269000926 putative active site [active] 546269000927 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 546269000928 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 546269000929 Walker A/P-loop; other site 546269000930 ATP binding site [chemical binding]; other site 546269000931 Q-loop/lid; other site 546269000932 ABC transporter signature motif; other site 546269000933 Walker B; other site 546269000934 D-loop; other site 546269000935 H-loop/switch region; other site 546269000936 NIL domain; Region: NIL; cl09633 546269000937 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 546269000938 dimer interface [polypeptide binding]; other site 546269000939 conserved gate region; other site 546269000940 putative PBP binding loops; other site 546269000941 ABC-ATPase subunit interface; other site 546269000942 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 546269000943 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 546269000944 active site 546269000945 (T/H)XGH motif; other site 546269000946 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 546269000947 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546269000948 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 546269000949 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 546269000950 Oligomerisation domain; Region: Oligomerisation; cl00519 546269000951 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 546269000952 Rubredoxin; Region: Rubredoxin; pfam00301 546269000953 iron binding site [ion binding]; other site 546269000954 elongation factor Ts; Provisional; Region: tsf; PRK09377 546269000955 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 546269000956 Elongation factor TS; Region: EF_TS; pfam00889 546269000957 Elongation factor TS; Region: EF_TS; pfam00889 546269000958 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 546269000959 rRNA interaction site [nucleotide binding]; other site 546269000960 S8 interaction site; other site 546269000961 putative laminin-1 binding site; other site 546269000962 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 546269000963 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 546269000964 RNase E interface [polypeptide binding]; other site 546269000965 trimer interface [polypeptide binding]; other site 546269000966 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 546269000967 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 546269000968 RNase E interface [polypeptide binding]; other site 546269000969 trimer interface [polypeptide binding]; other site 546269000970 active site 546269000971 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 546269000972 putative nucleic acid binding region [nucleotide binding]; other site 546269000973 G-X-X-G motif; other site 546269000974 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 546269000975 RNA binding site [nucleotide binding]; other site 546269000976 domain interface; other site 546269000977 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 546269000978 16S/18S rRNA binding site [nucleotide binding]; other site 546269000979 S13e-L30e interaction site [polypeptide binding]; other site 546269000980 25S rRNA binding site [nucleotide binding]; other site 546269000981 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 546269000982 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 546269000983 active site 546269000984 Riboflavin kinase; Region: Flavokinase; cl03312 546269000985 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 546269000986 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 546269000987 RNA binding site [nucleotide binding]; other site 546269000988 active site 546269000989 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 546269000990 DHH family; Region: DHH; pfam01368 546269000991 DHHA1 domain; Region: DHHA1; pfam02272 546269000992 Ribosome-binding factor A; Region: RBFA; cl00542 546269000993 translation initiation factor IF-2; Validated; Region: infB; PRK05306 546269000994 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 546269000995 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 546269000996 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 546269000997 G1 box; other site 546269000998 putative GEF interaction site [polypeptide binding]; other site 546269000999 GTP/Mg2+ binding site [chemical binding]; other site 546269001000 Switch I region; other site 546269001001 G2 box; other site 546269001002 G3 box; other site 546269001003 Switch II region; other site 546269001004 G4 box; other site 546269001005 G5 box; other site 546269001006 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 546269001007 Translation-initiation factor 2; Region: IF-2; pfam11987 546269001008 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 546269001009 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 546269001010 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 546269001011 putative RNA binding cleft [nucleotide binding]; other site 546269001012 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 546269001013 NusA N-terminal domain; Region: NusA_N; pfam08529 546269001014 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 546269001015 RNA binding site [nucleotide binding]; other site 546269001016 homodimer interface [polypeptide binding]; other site 546269001017 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 546269001018 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 546269001019 G-X-X-G motif; other site 546269001020 ribosome maturation protein RimP; Reviewed; Region: PRK00092 546269001021 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 546269001022 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 546269001023 Sm1 motif; other site 546269001024 D3 - B interaction site; other site 546269001025 D1 - D2 interaction site; other site 546269001026 Hfq - Hfq interaction site; other site 546269001027 RNA binding pocket [nucleotide binding]; other site 546269001028 Sm2 motif; other site 546269001029 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 546269001030 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 546269001031 Type II/IV secretion system protein; Region: T2SE; pfam00437 546269001032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001033 Walker A motif; other site 546269001034 ATP binding site [chemical binding]; other site 546269001035 Walker B motif; other site 546269001036 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 546269001037 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 546269001038 ATP cone domain; Region: ATP-cone; pfam03477 546269001039 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 546269001040 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 546269001041 nucleotide binding site [chemical binding]; other site 546269001042 SulA interaction site; other site 546269001043 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 546269001044 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 546269001045 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 546269001046 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 546269001047 Cell division protein FtsQ; Region: FtsQ; pfam03799 546269001048 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 546269001049 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 546269001050 active site 546269001051 homodimer interface [polypeptide binding]; other site 546269001052 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 546269001053 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 546269001054 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546269001055 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 546269001056 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 546269001057 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 546269001058 Mg++ binding site [ion binding]; other site 546269001059 putative catalytic motif [active] 546269001060 putative substrate binding site [chemical binding]; other site 546269001061 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 546269001062 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 546269001063 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546269001064 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 546269001065 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 546269001066 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 546269001067 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 546269001068 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 546269001069 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 546269001070 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 546269001071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269001072 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 546269001073 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 546269001074 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 546269001075 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 546269001076 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 546269001077 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 546269001078 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 546269001079 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 546269001080 Ligand Binding Site [chemical binding]; other site 546269001081 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 546269001082 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 546269001083 ligand binding site [chemical binding]; other site 546269001084 dimerization interface [polypeptide binding]; other site 546269001085 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 546269001086 TM-ABC transporter signature motif; other site 546269001087 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 546269001088 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 546269001089 Walker A/P-loop; other site 546269001090 ATP binding site [chemical binding]; other site 546269001091 Q-loop/lid; other site 546269001092 ABC transporter signature motif; other site 546269001093 Walker B; other site 546269001094 D-loop; other site 546269001095 H-loop/switch region; other site 546269001096 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 546269001097 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 546269001098 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 546269001099 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 546269001100 substrate binding site [chemical binding]; other site 546269001101 dimer interface [polypeptide binding]; other site 546269001102 ATP binding site [chemical binding]; other site 546269001103 Transcriptional regulators [Transcription]; Region: PurR; COG1609 546269001104 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 546269001105 DNA binding site [nucleotide binding] 546269001106 domain linker motif; other site 546269001107 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 546269001108 dimerization interface [polypeptide binding]; other site 546269001109 ligand binding site [chemical binding]; other site 546269001110 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 546269001111 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546269001112 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 546269001113 Membrane protein of unknown function; Region: DUF360; cl00850 546269001114 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 546269001115 THUMP domain; Region: THUMP; cl12076 546269001116 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 546269001117 Ligand Binding Site [chemical binding]; other site 546269001118 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 546269001119 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 546269001120 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546269001121 catalytic residue [active] 546269001122 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 546269001123 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 546269001124 trimer interface [polypeptide binding]; other site 546269001125 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 546269001126 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 546269001127 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 546269001128 PhoU domain; Region: PhoU; pfam01895 546269001129 PhoU domain; Region: PhoU; pfam01895 546269001130 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 546269001131 Predicted GTPase [General function prediction only]; Region: COG0218 546269001132 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 546269001133 G1 box; other site 546269001134 GTP/Mg2+ binding site [chemical binding]; other site 546269001135 Switch I region; other site 546269001136 G2 box; other site 546269001137 G3 box; other site 546269001138 Switch II region; other site 546269001139 G4 box; other site 546269001140 G5 box; other site 546269001141 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 546269001142 Found in ATP-dependent protease La (LON); Region: LON; smart00464 546269001143 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 546269001144 Walker A motif; other site 546269001145 ATP binding site [chemical binding]; other site 546269001146 Walker B motif; other site 546269001147 arginine finger; other site 546269001148 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 546269001149 MatE; Region: MatE; cl10513 546269001150 MatE; Region: MatE; cl10513 546269001151 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 546269001152 SurA N-terminal domain; Region: SurA_N_3; cl07813 546269001153 PPIC-type PPIASE domain; Region: Rotamase; cl08278 546269001154 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 546269001155 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 546269001156 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 546269001157 ATP binding site [chemical binding]; other site 546269001158 putative Mg++ binding site [ion binding]; other site 546269001159 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 546269001160 nucleotide binding region [chemical binding]; other site 546269001161 ATP-binding site [chemical binding]; other site 546269001162 TRCF domain; Region: TRCF; cl04088 546269001163 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 546269001164 putative active site [active] 546269001165 catalytic residue [active] 546269001166 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 546269001167 active site 546269001168 metal binding site [ion binding]; metal-binding site 546269001169 dimerization interface [polypeptide binding]; other site 546269001170 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 546269001171 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 546269001172 active site 546269001173 HIGH motif; other site 546269001174 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 546269001175 KMSKS motif; other site 546269001176 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 546269001177 tRNA binding surface [nucleotide binding]; other site 546269001178 anticodon binding site; other site 546269001179 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 546269001180 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 546269001181 Ligand Binding Site [chemical binding]; other site 546269001182 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 546269001183 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 546269001184 motif 1; other site 546269001185 active site 546269001186 motif 2; other site 546269001187 motif 3; other site 546269001188 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 546269001189 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 546269001190 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 546269001191 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 546269001192 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 546269001193 Int/Topo IB signature motif; other site 546269001194 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 546269001195 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 546269001196 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 546269001197 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 546269001198 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 546269001199 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 546269001200 Walker A/P-loop; other site 546269001201 ATP binding site [chemical binding]; other site 546269001202 Q-loop/lid; other site 546269001203 ABC transporter signature motif; other site 546269001204 Walker B; other site 546269001205 D-loop; other site 546269001206 H-loop/switch region; other site 546269001207 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001208 Walker A/P-loop; other site 546269001209 ATP binding site [chemical binding]; other site 546269001210 Q-loop/lid; other site 546269001211 ABC transporter signature motif; other site 546269001212 Walker B; other site 546269001213 D-loop; other site 546269001214 H-loop/switch region; other site 546269001215 Cobalt transport protein; Region: CbiQ; cl00463 546269001216 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 546269001217 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269001218 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001219 Walker A/P-loop; other site 546269001220 ATP binding site [chemical binding]; other site 546269001221 Q-loop/lid; other site 546269001222 ABC transporter signature motif; other site 546269001223 Walker B; other site 546269001224 D-loop; other site 546269001225 H-loop/switch region; other site 546269001226 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 546269001227 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269001228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001229 Walker A/P-loop; other site 546269001230 ATP binding site [chemical binding]; other site 546269001231 Q-loop/lid; other site 546269001232 ABC transporter signature motif; other site 546269001233 Walker B; other site 546269001234 D-loop; other site 546269001235 H-loop/switch region; other site 546269001236 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 546269001237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 546269001238 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546269001239 Helix-turn-helix domains; Region: HTH; cl00088 546269001240 Integrase core domain; Region: rve; cl01316 546269001241 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 546269001242 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 546269001243 Antirestriction protein (ArdA); Region: ArdA; cl01953 546269001244 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 546269001245 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 546269001246 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 546269001247 MPN+ (JAMM) motif; other site 546269001248 Zinc-binding site [ion binding]; other site 546269001249 RelB antitoxin; Region: RelB; cl01171 546269001250 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 546269001251 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 546269001252 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 546269001253 NlpC/P60 family; Region: NLPC_P60; cl11438 546269001254 AAA-like domain; Region: AAA_10; pfam12846 546269001255 Domain of unknown function DUF87; Region: DUF87; pfam01935 546269001256 PrgI family protein; Region: PrgI; pfam12666 546269001257 MT-A70; Region: MT-A70; cl01947 546269001258 Maff2 family; Region: Maff2; pfam12750 546269001259 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 546269001260 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001261 Walker A motif; other site 546269001262 ATP binding site [chemical binding]; other site 546269001263 Walker B motif; other site 546269001264 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 546269001265 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 546269001266 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 546269001267 cofactor binding site; other site 546269001268 DNA binding site [nucleotide binding] 546269001269 substrate interaction site [chemical binding]; other site 546269001270 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 546269001271 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 546269001272 active site 546269001273 metal binding site [ion binding]; metal-binding site 546269001274 interdomain interaction site; other site 546269001275 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 546269001276 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269001277 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001278 Walker A/P-loop; other site 546269001279 ATP binding site [chemical binding]; other site 546269001280 Q-loop/lid; other site 546269001281 ABC transporter signature motif; other site 546269001282 Walker B; other site 546269001283 D-loop; other site 546269001284 H-loop/switch region; other site 546269001285 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 546269001286 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269001287 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001288 Walker A/P-loop; other site 546269001289 ATP binding site [chemical binding]; other site 546269001290 Q-loop/lid; other site 546269001291 ABC transporter signature motif; other site 546269001292 Walker B; other site 546269001293 D-loop; other site 546269001294 H-loop/switch region; other site 546269001295 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 546269001296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269001297 CoA-ligase; Region: Ligase_CoA; cl02894 546269001298 Helix-turn-helix domains; Region: HTH; cl00088 546269001299 S-layer homology domain; Region: SLH; pfam00395 546269001300 S-layer homology domain; Region: SLH; pfam00395 546269001301 Family of unknown function (DUF695); Region: DUF695; pfam05117 546269001302 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 546269001303 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; cl01757 546269001304 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546269001305 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 546269001306 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cl09913 546269001307 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 546269001308 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 546269001309 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; cl00083 546269001310 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; cl00083 546269001311 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 546269001312 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 546269001313 Int/Topo IB signature motif; other site 546269001314 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 546269001315 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546269001316 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546269001317 FtsX-like permease family; Region: FtsX; cl15850 546269001318 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 546269001319 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 546269001320 Walker A/P-loop; other site 546269001321 ATP binding site [chemical binding]; other site 546269001322 Q-loop/lid; other site 546269001323 ABC transporter signature motif; other site 546269001324 Walker B; other site 546269001325 D-loop; other site 546269001326 H-loop/switch region; other site 546269001327 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 546269001328 dimer interface [polypeptide binding]; other site 546269001329 phosphorylation site [posttranslational modification] 546269001330 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 546269001331 ATP binding site [chemical binding]; other site 546269001332 Mg2+ binding site [ion binding]; other site 546269001333 G-X-G motif; other site 546269001334 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 546269001335 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 546269001336 active site 546269001337 phosphorylation site [posttranslational modification] 546269001338 intermolecular recognition site; other site 546269001339 dimerization interface [polypeptide binding]; other site 546269001340 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 546269001341 DNA binding site [nucleotide binding] 546269001342 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 546269001343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269001344 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 546269001345 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 546269001346 DNA binding site [nucleotide binding] 546269001347 Int/Topo IB signature motif; other site 546269001348 active site 546269001349 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 546269001350 Uncharacterized conserved protein [Function unknown]; Region: COG4983 546269001351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269001352 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001353 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001355 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 546269001356 DNA topoisomerase III; Provisional; Region: PRK07726 546269001357 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 546269001358 active site 546269001359 putative interdomain interaction site [polypeptide binding]; other site 546269001360 putative metal-binding site [ion binding]; other site 546269001361 putative nucleotide binding site [chemical binding]; other site 546269001362 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 546269001363 domain I; other site 546269001364 DNA binding groove [nucleotide binding] 546269001365 phosphate binding site [ion binding]; other site 546269001366 domain II; other site 546269001367 domain III; other site 546269001368 nucleotide binding site [chemical binding]; other site 546269001369 catalytic site [active] 546269001370 domain IV; other site 546269001371 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 546269001372 Divergent AAA domain; Region: AAA_4; pfam04326 546269001373 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 546269001374 Helix-turn-helix domains; Region: HTH; cl00088 546269001375 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 546269001376 NlpC/P60 family; Region: NLPC_P60; cl11438 546269001377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269001378 AAA-like domain; Region: AAA_10; pfam12846 546269001379 PrgI family protein; Region: PrgI; pfam12666 546269001380 Maff2 family; Region: Maff2; pfam12750 546269001381 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 546269001382 generic binding surface II; other site 546269001383 generic binding surface I; other site 546269001384 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001385 Walker B motif; other site 546269001386 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 546269001387 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 546269001388 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 546269001389 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 546269001390 MobA/MobL family; Region: MobA_MobL; pfam03389 546269001391 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 546269001392 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 546269001393 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 546269001394 MatE; Region: MatE; cl10513 546269001395 MatE; Region: MatE; cl10513 546269001396 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 546269001397 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 546269001398 Walker A/P-loop; other site 546269001399 ATP binding site [chemical binding]; other site 546269001400 Q-loop/lid; other site 546269001401 ABC transporter signature motif; other site 546269001402 Walker B; other site 546269001403 D-loop; other site 546269001404 H-loop/switch region; other site 546269001405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001406 Walker A/P-loop; other site 546269001407 ATP binding site [chemical binding]; other site 546269001408 Q-loop/lid; other site 546269001409 ABC transporter signature motif; other site 546269001410 Walker B; other site 546269001411 D-loop; other site 546269001412 H-loop/switch region; other site 546269001413 Cobalt transport protein; Region: CbiQ; cl00463 546269001414 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 546269001415 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 546269001416 Helix-turn-helix domains; Region: HTH; cl00088 546269001417 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 546269001418 putative catalytic residues [active] 546269001419 catalytic nucleophile [active] 546269001420 Recombinase; Region: Recombinase; pfam07508 546269001421 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 546269001422 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 546269001423 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001424 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 546269001425 MobA/MobL family; Region: MobA_MobL; pfam03389 546269001426 V-type ATP synthase subunit I; Validated; Region: PRK05771 546269001427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269001428 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 546269001429 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 546269001430 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 546269001431 putative catalytic residues [active] 546269001432 catalytic nucleophile [active] 546269001433 Recombinase; Region: Recombinase; pfam07508 546269001434 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 546269001435 Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell division and chromosome partitioning]; Region: NIP100; COG5244 546269001436 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 546269001437 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 546269001438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001439 Walker A motif; other site 546269001440 ATP binding site [chemical binding]; other site 546269001441 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 546269001442 hypothetical protein; Validated; Region: PRK08116 546269001443 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 546269001444 Walker A motif; other site 546269001445 ATP binding site [chemical binding]; other site 546269001446 Walker B motif; other site 546269001447 arginine finger; other site 546269001448 Helix-turn-helix domains; Region: HTH; cl00088 546269001449 BRO family, N-terminal domain; Region: Bro-N; cl10591 546269001450 ParB-like nuclease domain; Region: ParBc; cl02129 546269001451 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 546269001452 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 546269001453 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 546269001454 P-loop; other site 546269001455 Magnesium ion binding site [ion binding]; other site 546269001456 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 546269001457 Magnesium ion binding site [ion binding]; other site 546269001458 hypothetical protein; Validated; Region: PRK08116 546269001459 Helix-turn-helix domains; Region: HTH; cl00088 546269001460 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 546269001461 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 546269001462 dimer interface [polypeptide binding]; other site 546269001463 putative anticodon binding site; other site 546269001464 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 546269001465 motif 1; other site 546269001466 active site 546269001467 motif 2; other site 546269001468 motif 3; other site 546269001469 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 546269001470 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 546269001471 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 546269001472 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 546269001473 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 546269001474 FMN binding site [chemical binding]; other site 546269001475 active site 546269001476 catalytic residues [active] 546269001477 substrate binding site [chemical binding]; other site 546269001478 Type III pantothenate kinase; Region: Pan_kinase; cl09130 546269001479 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 546269001480 Helix-turn-helix domains; Region: HTH; cl00088 546269001481 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 546269001482 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 546269001483 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 546269001484 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 546269001485 UPF0489 domain; Region: UPF0489; pfam12640 546269001486 Bacitracin resistance protein BacA; Region: BacA; cl00858 546269001487 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 546269001488 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 546269001489 dimer interface [polypeptide binding]; other site 546269001490 PYR/PP interface [polypeptide binding]; other site 546269001491 TPP binding site [chemical binding]; other site 546269001492 substrate binding site [chemical binding]; other site 546269001493 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 546269001494 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 546269001495 Domain of unknown function; Region: EKR; cl11037 546269001496 4Fe-4S binding domain; Region: Fer4; cl02805 546269001497 4Fe-4S binding domain; Region: Fer4; cl02805 546269001498 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 546269001499 TPP-binding site [chemical binding]; other site 546269001500 dimer interface [polypeptide binding]; other site 546269001501 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 546269001502 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 546269001503 trimerization site [polypeptide binding]; other site 546269001504 active site 546269001505 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 546269001506 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 546269001507 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546269001508 catalytic residue [active] 546269001509 Rrf2 family protein; Region: rrf2_super; TIGR00738 546269001510 Helix-turn-helix domains; Region: HTH; cl00088 546269001511 Restriction endonuclease; Region: Mrr_cat; cl00516 546269001512 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 546269001513 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 546269001514 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001515 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 546269001516 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 546269001517 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 546269001518 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 546269001519 DNA topoisomerase I; Validated; Region: PRK05582 546269001520 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 546269001521 active site 546269001522 interdomain interaction site; other site 546269001523 putative metal-binding site [ion binding]; other site 546269001524 nucleotide binding site [chemical binding]; other site 546269001525 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 546269001526 domain I; other site 546269001527 DNA binding groove [nucleotide binding] 546269001528 phosphate binding site [ion binding]; other site 546269001529 domain II; other site 546269001530 domain III; other site 546269001531 nucleotide binding site [chemical binding]; other site 546269001532 catalytic site [active] 546269001533 domain IV; other site 546269001534 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 546269001535 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 546269001536 transcriptional repressor CodY; Validated; Region: PRK04158 546269001537 CodY GAF-like domain; Region: CodY; pfam06018 546269001538 Helix-turn-helix domains; Region: HTH; cl00088 546269001539 recombination factor protein RarA; Reviewed; Region: PRK13342 546269001540 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 546269001541 Walker A motif; other site 546269001542 ATP binding site [chemical binding]; other site 546269001543 Walker B motif; other site 546269001544 arginine finger; other site 546269001545 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 546269001546 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 546269001547 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 546269001548 metal binding site [ion binding]; metal-binding site 546269001549 dimer interface [polypeptide binding]; other site 546269001550 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 546269001551 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 546269001552 dimerization interface 3.5A [polypeptide binding]; other site 546269001553 active site 546269001554 ApbE family; Region: ApbE; cl00643 546269001555 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 546269001556 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 546269001557 Walker A/P-loop; other site 546269001558 ATP binding site [chemical binding]; other site 546269001559 Q-loop/lid; other site 546269001560 ABC transporter signature motif; other site 546269001561 Walker B; other site 546269001562 D-loop; other site 546269001563 H-loop/switch region; other site 546269001564 Smr domain; Region: Smr; cl02619 546269001565 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 546269001566 Peptidase family U32; Region: Peptidase_U32; cl03113 546269001567 Collagenase; Region: DUF3656; pfam12392 546269001568 Cell division protein ZapA; Region: ZapA; cl01146 546269001569 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 546269001570 FMN binding site [chemical binding]; other site 546269001571 dimer interface [polypeptide binding]; other site 546269001572 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 546269001573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269001574 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 546269001575 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 546269001576 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 546269001577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269001578 homodimer interface [polypeptide binding]; other site 546269001579 catalytic residue [active] 546269001580 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 546269001581 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 546269001582 active site 546269001583 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 546269001584 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 546269001585 Catalytic site [active] 546269001586 DNA polymerase III PolC; Validated; Region: polC; PRK00448 546269001587 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 546269001588 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 546269001589 generic binding surface II; other site 546269001590 generic binding surface I; other site 546269001591 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 546269001592 active site 546269001593 substrate binding site [chemical binding]; other site 546269001594 catalytic site [active] 546269001595 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 546269001596 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 546269001597 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 546269001598 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 546269001599 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 546269001600 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 546269001601 active site 546269001602 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 546269001603 protein binding site [polypeptide binding]; other site 546269001604 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 546269001605 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 546269001606 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 546269001607 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 546269001608 catalytic residue [active] 546269001609 putative FPP diphosphate binding site; other site 546269001610 putative FPP binding hydrophobic cleft; other site 546269001611 dimer interface [polypeptide binding]; other site 546269001612 putative IPP diphosphate binding site; other site 546269001613 ribosome recycling factor; Reviewed; Region: frr; PRK00083 546269001614 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 546269001615 hinge region; other site 546269001616 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 546269001617 putative nucleotide binding site [chemical binding]; other site 546269001618 uridine monophosphate binding site [chemical binding]; other site 546269001619 homohexameric interface [polypeptide binding]; other site 546269001620 Predicted amidohydrolase [General function prediction only]; Region: COG0388 546269001621 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 546269001622 putative active site [active] 546269001623 catalytic triad [active] 546269001624 putative dimer interface [polypeptide binding]; other site 546269001625 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 546269001626 trimer interface [polypeptide binding]; other site 546269001627 active site 546269001628 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 546269001629 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 546269001630 FeS/SAM binding site; other site 546269001631 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 546269001632 Protein of unknown function (DUF4001); Region: DUF4001; cl14848 546269001633 Protein of unknown function (DUF4001); Region: DUF4001; cl14848 546269001634 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 546269001635 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 546269001636 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546269001637 catalytic residue [active] 546269001638 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 546269001639 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 546269001640 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 546269001641 active site 546269001642 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 546269001643 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 546269001644 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546269001645 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 546269001646 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 546269001647 ligand binding site [chemical binding]; other site 546269001648 active site 546269001649 UGI interface [polypeptide binding]; other site 546269001650 catalytic site [active] 546269001651 helicase 45; Provisional; Region: PTZ00424 546269001652 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 546269001653 ATP binding site [chemical binding]; other site 546269001654 Mg++ binding site [ion binding]; other site 546269001655 motif III; other site 546269001656 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 546269001657 nucleotide binding region [chemical binding]; other site 546269001658 ATP-binding site [chemical binding]; other site 546269001659 DbpA RNA binding domain; Region: DbpA; pfam03880 546269001660 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 546269001661 Helix-turn-helix domains; Region: HTH; cl00088 546269001662 LexA repressor; Validated; Region: PRK00215 546269001663 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 546269001664 Catalytic site [active] 546269001665 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 546269001666 MatE; Region: MatE; cl10513 546269001667 MatE; Region: MatE; cl10513 546269001668 chaperone protein DnaJ; Provisional; Region: PRK10767 546269001669 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 546269001670 HSP70 interaction site [polypeptide binding]; other site 546269001671 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 546269001672 substrate binding site [polypeptide binding]; other site 546269001673 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 546269001674 Zn binding sites [ion binding]; other site 546269001675 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 546269001676 dimer interface [polypeptide binding]; other site 546269001677 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 546269001678 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 546269001679 dimer interface [polypeptide binding]; other site 546269001680 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 546269001681 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 546269001682 Helix-turn-helix domains; Region: HTH; cl00088 546269001683 HrcA protein C terminal domain; Region: HrcA; pfam01628 546269001684 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 546269001685 putative homotetramer interface [polypeptide binding]; other site 546269001686 putative homodimer interface [polypeptide binding]; other site 546269001687 putative allosteric switch controlling residues; other site 546269001688 putative metal binding site [ion binding]; other site 546269001689 putative homodimer-homodimer interface [polypeptide binding]; other site 546269001690 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 546269001691 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 546269001692 metal-binding site [ion binding] 546269001693 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 546269001694 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 546269001695 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 546269001696 metal-binding site [ion binding] 546269001697 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 546269001698 Transposase IS200 like; Region: Y1_Tnp; cl00848 546269001699 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 546269001700 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 546269001701 23S rRNA interface [nucleotide binding]; other site 546269001702 L3 interface [polypeptide binding]; other site 546269001703 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 546269001704 nucleotide binding site/active site [active] 546269001705 HIT family signature motif; other site 546269001706 catalytic residue [active] 546269001707 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 546269001708 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 546269001709 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 546269001710 FeS/SAM binding site; other site 546269001711 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 546269001712 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 546269001713 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 546269001714 Membrane transport protein; Region: Mem_trans; cl09117 546269001715 rod shape-determining protein Mbl; Provisional; Region: PRK13928 546269001716 Cell division protein FtsA; Region: FtsA; cl11496 546269001717 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 546269001718 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 546269001719 hinge; other site 546269001720 active site 546269001721 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 546269001722 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 546269001723 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 546269001724 VanW like protein; Region: VanW; pfam04294 546269001725 G5 domain; Region: G5; pfam07501 546269001726 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 546269001727 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 546269001728 minor groove reading motif; other site 546269001729 helix-hairpin-helix signature motif; other site 546269001730 substrate binding pocket [chemical binding]; other site 546269001731 active site 546269001732 Protein of unknown function (DUF503); Region: DUF503; cl00669 546269001733 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 546269001734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001735 Walker A/P-loop; other site 546269001736 ATP binding site [chemical binding]; other site 546269001737 Q-loop/lid; other site 546269001738 ABC transporter signature motif; other site 546269001739 Walker B; other site 546269001740 D-loop; other site 546269001741 H-loop/switch region; other site 546269001742 ABC transporter; Region: ABC_tran_2; pfam12848 546269001743 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 546269001744 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 546269001745 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 546269001746 Isochorismatase family; Region: Isochorismatase; pfam00857 546269001747 catalytic triad [active] 546269001748 dimer interface [polypeptide binding]; other site 546269001749 conserved cis-peptide bond; other site 546269001750 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 546269001751 putative active site [active] 546269001752 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 546269001753 active site 546269001754 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 546269001755 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 546269001756 Flavoprotein; Region: Flavoprotein; cl08021 546269001757 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 546269001758 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 546269001759 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 546269001760 catalytic site [active] 546269001761 G-X2-G-X-G-K; other site 546269001762 hypothetical protein; Provisional; Region: PRK11820 546269001763 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 546269001764 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 546269001765 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 546269001766 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 546269001767 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 546269001768 ABC-ATPase subunit interface; other site 546269001769 dimer interface [polypeptide binding]; other site 546269001770 putative PBP binding regions; other site 546269001771 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 546269001772 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 546269001773 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 546269001774 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 546269001775 metal binding site [ion binding]; metal-binding site 546269001776 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 546269001777 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 546269001778 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 546269001779 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 546269001780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269001781 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 546269001782 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 546269001783 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 546269001784 active site 546269001785 metal binding site [ion binding]; metal-binding site 546269001786 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 546269001787 putative active site [active] 546269001788 putative CoA binding site [chemical binding]; other site 546269001789 nudix motif; other site 546269001790 metal binding site [ion binding]; metal-binding site 546269001791 GTP-binding protein YchF; Reviewed; Region: PRK09601 546269001792 YchF GTPase; Region: YchF; cd01900 546269001793 G1 box; other site 546269001794 GTP/Mg2+ binding site [chemical binding]; other site 546269001795 Switch I region; other site 546269001796 G2 box; other site 546269001797 Switch II region; other site 546269001798 G3 box; other site 546269001799 G4 box; other site 546269001800 G5 box; other site 546269001801 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 546269001802 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 546269001803 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 546269001804 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 546269001805 putative oxidoreductase; Provisional; Region: PRK12831 546269001806 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 546269001807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269001808 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 546269001809 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 546269001810 FAD binding pocket [chemical binding]; other site 546269001811 FAD binding motif [chemical binding]; other site 546269001812 phosphate binding motif [ion binding]; other site 546269001813 beta-alpha-beta structure motif; other site 546269001814 NAD binding pocket [chemical binding]; other site 546269001815 Iron coordination center [ion binding]; other site 546269001816 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 546269001817 catalytic residue [active] 546269001818 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 546269001819 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 546269001820 metal binding site [ion binding]; metal-binding site 546269001821 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 546269001822 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 546269001823 dimerization interface [polypeptide binding]; other site 546269001824 domain crossover interface; other site 546269001825 redox-dependent activation switch; other site 546269001826 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 546269001827 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 546269001828 S-adenosylmethionine binding site [chemical binding]; other site 546269001829 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 546269001830 active site 546269001831 Transcriptional regulators [Transcription]; Region: PurR; COG1609 546269001832 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 546269001833 DNA binding site [nucleotide binding] 546269001834 domain linker motif; other site 546269001835 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 546269001836 ligand binding site [chemical binding]; other site 546269001837 dimerization interface [polypeptide binding]; other site 546269001838 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 546269001839 Phosphopantetheine attachment site; Region: PP-binding; cl09936 546269001840 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 546269001841 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 546269001842 active site 546269001843 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 546269001844 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 546269001845 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 546269001846 active site 546269001847 HIGH motif; other site 546269001848 nucleotide binding site [chemical binding]; other site 546269001849 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 546269001850 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 546269001851 active site 546269001852 KMSKS motif; other site 546269001853 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 546269001854 tRNA binding surface [nucleotide binding]; other site 546269001855 anticodon binding site; other site 546269001856 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 546269001857 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 546269001858 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 546269001859 non-specific DNA binding site [nucleotide binding]; other site 546269001860 salt bridge; other site 546269001861 sequence-specific DNA binding site [nucleotide binding]; other site 546269001862 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 546269001863 Catalytic site [active] 546269001864 GTP-binding protein LepA; Provisional; Region: PRK05433 546269001865 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 546269001866 G1 box; other site 546269001867 putative GEF interaction site [polypeptide binding]; other site 546269001868 GTP/Mg2+ binding site [chemical binding]; other site 546269001869 Switch I region; other site 546269001870 G2 box; other site 546269001871 G3 box; other site 546269001872 Switch II region; other site 546269001873 G4 box; other site 546269001874 G5 box; other site 546269001875 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 546269001876 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 546269001877 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 546269001878 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 546269001879 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 546269001880 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 546269001881 Competence protein; Region: Competence; cl00471 546269001882 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 546269001883 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 546269001884 Coenzyme A binding pocket [chemical binding]; other site 546269001885 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 546269001886 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546269001887 YARHG domain; Region: YARHG; pfam13308 546269001888 elongation factor Tu; Reviewed; Region: PRK00049 546269001889 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 546269001890 G1 box; other site 546269001891 GEF interaction site [polypeptide binding]; other site 546269001892 GTP/Mg2+ binding site [chemical binding]; other site 546269001893 Switch I region; other site 546269001894 G2 box; other site 546269001895 G3 box; other site 546269001896 Switch II region; other site 546269001897 G4 box; other site 546269001898 G5 box; other site 546269001899 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 546269001900 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 546269001901 Antibiotic Binding Site [chemical binding]; other site 546269001902 elongation factor G; Reviewed; Region: PRK00007 546269001903 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 546269001904 G1 box; other site 546269001905 putative GEF interaction site [polypeptide binding]; other site 546269001906 GTP/Mg2+ binding site [chemical binding]; other site 546269001907 Switch I region; other site 546269001908 G2 box; other site 546269001909 G3 box; other site 546269001910 Switch II region; other site 546269001911 G4 box; other site 546269001912 G5 box; other site 546269001913 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 546269001914 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 546269001915 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 546269001916 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 546269001917 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 546269001918 S17 interaction site [polypeptide binding]; other site 546269001919 S8 interaction site; other site 546269001920 16S rRNA interaction site [nucleotide binding]; other site 546269001921 streptomycin interaction site [chemical binding]; other site 546269001922 23S rRNA interaction site [nucleotide binding]; other site 546269001923 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 546269001924 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 546269001925 MatE; Region: MatE; cl10513 546269001926 MatE; Region: MatE; cl10513 546269001927 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 546269001928 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 546269001929 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546269001930 Zn2+ binding site [ion binding]; other site 546269001931 Mg2+ binding site [ion binding]; other site 546269001932 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 546269001933 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 546269001934 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 546269001935 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 546269001936 GIY-YIG motif/motif A; other site 546269001937 active site 546269001938 catalytic site [active] 546269001939 putative DNA binding site [nucleotide binding]; other site 546269001940 metal binding site [ion binding]; metal-binding site 546269001941 UvrB/uvrC motif; Region: UVR; pfam02151 546269001942 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 546269001943 phosphoenolpyruvate synthase; Validated; Region: PRK06241 546269001944 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 546269001945 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 546269001946 UbiA prenyltransferase family; Region: UbiA; cl00337 546269001947 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 546269001948 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 546269001949 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 546269001950 phosphoenolpyruvate synthase; Validated; Region: PRK06241 546269001951 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 546269001952 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 546269001953 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 546269001954 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 546269001955 Acetokinase family; Region: Acetate_kinase; cl01029 546269001956 propionate/acetate kinase; Provisional; Region: PRK12379 546269001957 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 546269001958 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 546269001959 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 546269001960 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 546269001961 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 546269001962 dimerization interface [polypeptide binding]; other site 546269001963 DPS ferroxidase diiron center [ion binding]; other site 546269001964 ion pore; other site 546269001965 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 546269001966 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 546269001967 motif II; other site 546269001968 competence damage-inducible protein A; Provisional; Region: PRK00549 546269001969 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 546269001970 putative MPT binding site; other site 546269001971 Competence-damaged protein; Region: CinA; cl00666 546269001972 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 546269001973 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269001974 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 546269001975 Walker A/P-loop; other site 546269001976 ATP binding site [chemical binding]; other site 546269001977 Q-loop/lid; other site 546269001978 ABC transporter signature motif; other site 546269001979 Walker B; other site 546269001980 D-loop; other site 546269001981 H-loop/switch region; other site 546269001982 4Fe-4S binding domain; Region: Fer4; cl02805 546269001983 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 546269001984 4Fe-4S binding domain; Region: Fer4; cl02805 546269001985 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 546269001986 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 546269001987 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 546269001988 NAD(P) binding site [chemical binding]; other site 546269001989 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 546269001990 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 546269001991 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 546269001992 Walker A motif; other site 546269001993 ATP binding site [chemical binding]; other site 546269001994 Walker B motif; other site 546269001995 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 546269001996 Clp protease; Region: CLP_protease; pfam00574 546269001997 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 546269001998 oligomer interface [polypeptide binding]; other site 546269001999 active site residues [active] 546269002000 trigger factor; Provisional; Region: tig; PRK01490 546269002001 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 546269002002 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 546269002003 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546269002004 Helix-turn-helix domains; Region: HTH; cl00088 546269002005 Integrase core domain; Region: rve; cl01316 546269002006 MAC/Perforin domain; Region: MACPF; cl02616 546269002007 DNA repair protein RadA; Provisional; Region: PRK11823 546269002008 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 546269002009 Walker A motif/ATP binding site; other site 546269002010 ATP binding site [chemical binding]; other site 546269002011 Walker B motif; other site 546269002012 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 546269002013 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 546269002014 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 546269002015 Protein of unknown function (DUF1307); Region: DUF1307; cl01981 546269002016 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 546269002017 MatE; Region: MatE; cl10513 546269002018 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 546269002019 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 546269002020 replicative DNA helicase; Region: DnaB; TIGR00665 546269002021 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 546269002022 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 546269002023 Walker A motif; other site 546269002024 ATP binding site [chemical binding]; other site 546269002025 Walker B motif; other site 546269002026 DNA binding loops [nucleotide binding] 546269002027 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 546269002028 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 546269002029 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 546269002030 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 546269002031 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 546269002032 DHH family; Region: DHH; pfam01368 546269002033 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 546269002034 nucleoside/Zn binding site; other site 546269002035 dimer interface [polypeptide binding]; other site 546269002036 catalytic motif [active] 546269002037 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 546269002038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002039 Family description; Region: UvrD_C_2; cl15862 546269002040 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 546269002041 S-adenosylmethionine synthetase; Validated; Region: PRK05250 546269002042 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 546269002043 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 546269002044 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 546269002045 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 546269002046 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 546269002047 dimer interface [polypeptide binding]; other site 546269002048 putative radical transfer pathway; other site 546269002049 diiron center [ion binding]; other site 546269002050 tyrosyl radical; other site 546269002051 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12364 546269002052 ATP cone domain; Region: ATP-cone; pfam03477 546269002053 Class I ribonucleotide reductase; Region: RNR_I; cd01679 546269002054 active site 546269002055 dimer interface [polypeptide binding]; other site 546269002056 catalytic residues [active] 546269002057 effector binding site; other site 546269002058 R2 peptide binding site; other site 546269002059 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 546269002060 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 546269002061 ligand binding site [chemical binding]; other site 546269002062 Helix-turn-helix domains; Region: HTH; cl00088 546269002063 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 546269002064 4Fe-4S binding domain; Region: Fer4; cl02805 546269002065 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; cl00436 546269002066 Cupin domain; Region: Cupin_2; cl09118 546269002067 TIGR04076 family protein; Region: TIGR04076 546269002068 hybrid cluster protein; Provisional; Region: PRK05290 546269002069 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 546269002070 ACS interaction site; other site 546269002071 CODH interaction site; other site 546269002072 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 546269002073 hybrid metal cluster; other site 546269002074 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 546269002075 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 546269002076 inhibitor-cofactor binding pocket; inhibition site 546269002077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269002078 catalytic residue [active] 546269002079 AAA domain; Region: AAA_26; pfam13500 546269002080 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002081 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002082 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 546269002083 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 546269002084 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 546269002085 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 546269002086 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 546269002087 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 546269002088 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 546269002089 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 546269002090 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 546269002091 Potassium binding sites [ion binding]; other site 546269002092 Cesium cation binding sites [ion binding]; other site 546269002093 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 546269002094 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 546269002095 active site 546269002096 HIGH motif; other site 546269002097 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 546269002098 active site 546269002099 KMSKS motif; other site 546269002100 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 546269002101 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 546269002102 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 546269002103 Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E); Region: PHA_synth_III_E; cl09914 546269002104 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 546269002105 dimer interaction site [polypeptide binding]; other site 546269002106 substrate-binding tunnel; other site 546269002107 active site 546269002108 catalytic site [active] 546269002109 substrate binding site [chemical binding]; other site 546269002110 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 546269002111 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 546269002112 Ligand binding site [chemical binding]; other site 546269002113 Electron transfer flavoprotein domain; Region: ETF; pfam01012 546269002114 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 546269002115 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 546269002116 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 546269002117 VanW like protein; Region: VanW; pfam04294 546269002118 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 546269002119 synthetase active site [active] 546269002120 NTP binding site [chemical binding]; other site 546269002121 metal binding site [ion binding]; metal-binding site 546269002122 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 546269002123 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 546269002124 dimer interface [polypeptide binding]; other site 546269002125 active site 546269002126 metal binding site [ion binding]; metal-binding site 546269002127 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269002128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002129 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 546269002130 Walker A/P-loop; other site 546269002131 ATP binding site [chemical binding]; other site 546269002132 Q-loop/lid; other site 546269002133 ABC transporter signature motif; other site 546269002134 Walker B; other site 546269002135 D-loop; other site 546269002136 H-loop/switch region; other site 546269002137 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 546269002138 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269002139 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002140 Walker A/P-loop; other site 546269002141 ATP binding site [chemical binding]; other site 546269002142 Q-loop/lid; other site 546269002143 ABC transporter signature motif; other site 546269002144 Walker B; other site 546269002145 D-loop; other site 546269002146 H-loop/switch region; other site 546269002147 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 546269002148 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 546269002149 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 546269002150 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 546269002151 aspartate racemase; Region: asp_race; TIGR00035 546269002152 DNA replication protein DnaC; Validated; Region: PRK06835 546269002153 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002154 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 546269002155 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 546269002156 Amidinotransferase; Region: Amidinotransf; cl12043 546269002157 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 546269002158 putative active site [active] 546269002159 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 546269002160 catalytic core [active] 546269002161 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 546269002162 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 546269002163 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 546269002164 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 546269002165 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine'...; Region: Peptidase_C39_likeA; cd02417 546269002166 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 546269002167 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269002168 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002169 Walker A/P-loop; other site 546269002170 ATP binding site [chemical binding]; other site 546269002171 Q-loop/lid; other site 546269002172 ABC transporter signature motif; other site 546269002173 Walker B; other site 546269002174 D-loop; other site 546269002175 H-loop/switch region; other site 546269002176 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 546269002177 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 546269002178 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 546269002179 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 546269002180 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 546269002181 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 546269002182 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 546269002183 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 546269002184 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 546269002185 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 546269002186 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 546269002187 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 546269002188 S-layer homology domain; Region: SLH; pfam00395 546269002189 S-layer homology domain; Region: SLH; pfam00395 546269002190 acetylornithine aminotransferase; Provisional; Region: PRK02627 546269002191 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 546269002192 inhibitor-cofactor binding pocket; inhibition site 546269002193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269002194 catalytic residue [active] 546269002195 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 546269002196 feedback inhibition sensing region; other site 546269002197 homohexameric interface [polypeptide binding]; other site 546269002198 nucleotide binding site [chemical binding]; other site 546269002199 N-acetyl-L-glutamate binding site [chemical binding]; other site 546269002200 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 546269002201 heterotetramer interface [polypeptide binding]; other site 546269002202 active site pocket [active] 546269002203 cleavage site 546269002204 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 546269002205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269002206 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 546269002207 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269002208 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 546269002209 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cl00148 546269002210 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546269002211 FtsX-like permease family; Region: FtsX; cl15850 546269002212 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 546269002213 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 546269002214 Walker A/P-loop; other site 546269002215 ATP binding site [chemical binding]; other site 546269002216 Q-loop/lid; other site 546269002217 ABC transporter signature motif; other site 546269002218 Walker B; other site 546269002219 D-loop; other site 546269002220 H-loop/switch region; other site 546269002221 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 546269002222 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 546269002223 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 546269002224 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 546269002225 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 546269002226 Cl- selectivity filter; other site 546269002227 Cl- binding residues [ion binding]; other site 546269002228 pore gating glutamate residue; other site 546269002229 dimer interface [polypeptide binding]; other site 546269002230 H+/Cl- coupling transport residue; other site 546269002231 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 546269002232 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 546269002233 Low molecular weight phosphatase family; Region: LMWPc; cd00115 546269002234 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 546269002235 active site 546269002236 tellurium resistance terB-like protein; Region: terB_like; cl11965 546269002237 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 546269002238 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 546269002239 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 546269002240 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 546269002241 O-Antigen ligase; Region: Wzy_C; cl04850 546269002242 Outer membrane efflux protein; Region: OEP; pfam02321 546269002243 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269002244 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269002245 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 546269002246 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 546269002247 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 546269002248 GTP binding site [chemical binding]; other site 546269002249 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 546269002250 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 546269002251 Walker A/P-loop; other site 546269002252 ATP binding site [chemical binding]; other site 546269002253 Q-loop/lid; other site 546269002254 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 546269002255 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 546269002256 Q-loop/lid; other site 546269002257 ABC transporter signature motif; other site 546269002258 Walker B; other site 546269002259 D-loop; other site 546269002260 H-loop/switch region; other site 546269002261 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 546269002262 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 546269002263 FeS/SAM binding site; other site 546269002264 ribonuclease III; Reviewed; Region: rnc; PRK00102 546269002265 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 546269002266 dimerization interface [polypeptide binding]; other site 546269002267 active site 546269002268 metal binding site [ion binding]; metal-binding site 546269002269 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 546269002270 dsRNA binding site [nucleotide binding]; other site 546269002271 elongation factor P; Validated; Region: PRK00529 546269002272 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 546269002273 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 546269002274 RNA binding site [nucleotide binding]; other site 546269002275 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 546269002276 RNA binding site [nucleotide binding]; other site 546269002277 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 546269002278 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 546269002279 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 546269002280 active site 546269002281 S-layer homology domain; Region: SLH; pfam00395 546269002282 S-layer homology domain; Region: SLH; pfam00395 546269002283 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 546269002284 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 546269002285 active site flap/lid [active] 546269002286 nucleophilic elbow; other site 546269002287 catalytic triad [active] 546269002288 transcription termination factor Rho; Provisional; Region: PRK12608 546269002289 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 546269002290 RNA binding site [nucleotide binding]; other site 546269002291 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 546269002292 multimer interface [polypeptide binding]; other site 546269002293 Walker A motif; other site 546269002294 ATP binding site [chemical binding]; other site 546269002295 Walker B motif; other site 546269002296 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 546269002297 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 546269002298 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 546269002299 putative active site [active] 546269002300 catalytic site [active] 546269002301 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 546269002302 putative active site [active] 546269002303 catalytic site [active] 546269002304 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 546269002305 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 546269002306 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 546269002307 minor groove reading motif; other site 546269002308 helix-hairpin-helix signature motif; other site 546269002309 substrate binding pocket [chemical binding]; other site 546269002310 active site 546269002311 Membrane transport protein; Region: Mem_trans; cl09117 546269002312 thymidine kinase; Provisional; Region: PRK04296 546269002313 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 546269002314 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 546269002315 active site 546269002316 HIGH motif; other site 546269002317 dimer interface [polypeptide binding]; other site 546269002318 KMSKS motif; other site 546269002319 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 546269002320 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 546269002321 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 546269002322 Predicted transcriptional regulator [Transcription]; Region: COG2378 546269002323 Helix-turn-helix domains; Region: HTH; cl00088 546269002324 WYL domain; Region: WYL; cl14852 546269002325 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 546269002326 Transporter associated domain; Region: CorC_HlyC; cl08393 546269002327 Protein of unknown function (DUF2004); Region: DUF2004; pfam09406 546269002328 Nitrogen regulatory protein P-II; Region: P-II; cl00412 546269002329 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 546269002330 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 546269002331 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 546269002332 DNA binding residues [nucleotide binding] 546269002333 Transglycosylase; Region: Transgly; cl07896 546269002334 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 546269002335 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 546269002336 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 546269002337 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 catalyze...; Region: LT_GEWL; cd00254 546269002338 N-acetyl-D-glucosamine binding site [chemical binding]; other site 546269002339 catalytic residue [active] 546269002340 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 546269002341 Predicted transcriptional regulators [Transcription]; Region: COG1725 546269002342 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 546269002343 DNA-binding site [nucleotide binding]; DNA binding site 546269002344 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 546269002345 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002346 Walker A/P-loop; other site 546269002347 ATP binding site [chemical binding]; other site 546269002348 Q-loop/lid; other site 546269002349 ABC transporter signature motif; other site 546269002350 Walker B; other site 546269002351 D-loop; other site 546269002352 H-loop/switch region; other site 546269002353 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 546269002354 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 546269002355 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 546269002356 active site 546269002357 homodimer interface [polypeptide binding]; other site 546269002358 Flavin Reductases; Region: FlaRed; cl00801 546269002359 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 546269002360 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 546269002361 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 546269002362 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 546269002363 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 546269002364 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 546269002365 alpha subunit interaction interface [polypeptide binding]; other site 546269002366 Walker A motif; other site 546269002367 ATP binding site [chemical binding]; other site 546269002368 Walker B motif; other site 546269002369 inhibitor binding site; inhibition site 546269002370 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 546269002371 ATP synthase; Region: ATP-synt; cl00365 546269002372 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 546269002373 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 546269002374 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 546269002375 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 546269002376 beta subunit interaction interface [polypeptide binding]; other site 546269002377 Walker A motif; other site 546269002378 ATP binding site [chemical binding]; other site 546269002379 Walker B motif; other site 546269002380 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 546269002381 Plant ATP synthase F0; Region: YMF19; cl07975 546269002382 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 546269002383 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 546269002384 Plant ATP synthase F0; Region: YMF19; cl07975 546269002385 ATP synthase subunit C; Region: ATP-synt_C; cl00466 546269002386 ATP synthase subunit C; Region: ATP-synt_C; cl00466 546269002387 ATP synthase subunit C; Region: ATP-synt_C; cl00466 546269002388 ATP synthase A chain; Region: ATP-synt_A; cl00413 546269002389 ATP synthase I chain; Region: ATP_synt_I; cl09170 546269002390 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 546269002391 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269002392 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 546269002393 active site 546269002394 putative DNA-binding cleft [nucleotide binding]; other site 546269002395 dimer interface [polypeptide binding]; other site 546269002396 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 546269002397 RuvA N terminal domain; Region: RuvA_N; pfam01330 546269002398 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 546269002399 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 546269002400 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 546269002401 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 546269002402 Walker A motif; other site 546269002403 ATP binding site [chemical binding]; other site 546269002404 Walker B motif; other site 546269002405 arginine finger; other site 546269002406 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 546269002407 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 546269002408 Stage II sporulation protein; Region: SpoIID; pfam08486 546269002409 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 546269002410 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 546269002411 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 546269002412 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 546269002413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269002414 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 546269002415 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 546269002416 active site 546269002417 motif I; other site 546269002418 motif II; other site 546269002419 Preprotein translocase subunit; Region: YajC; cl00806 546269002420 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 546269002421 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 546269002422 trimer interface [polypeptide binding]; other site 546269002423 putative metal binding site [ion binding]; other site 546269002424 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 546269002425 Protein export membrane protein; Region: SecD_SecF; cl14618 546269002426 Protein export membrane protein; Region: SecD_SecF; cl14618 546269002427 Haemolysin-III related; Region: HlyIII; cl03831 546269002428 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 546269002429 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 546269002430 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 546269002431 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 546269002432 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 546269002433 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 546269002434 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 546269002435 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 546269002436 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 546269002437 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 546269002438 pyruvate carboxylase subunit B; Validated; Region: PRK09282 546269002439 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 546269002440 carboxyltransferase (CT) interaction site; other site 546269002441 biotinylation site [posttranslational modification]; other site 546269002442 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 546269002443 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 546269002444 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 546269002445 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546269002446 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546269002447 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 546269002448 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 546269002449 FAD binding site [chemical binding]; other site 546269002450 homotetramer interface [polypeptide binding]; other site 546269002451 substrate binding pocket [chemical binding]; other site 546269002452 catalytic base [active] 546269002453 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 546269002454 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 546269002455 Rubredoxin; Region: Rubredoxin; pfam00301 546269002456 iron binding site [ion binding]; other site 546269002457 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 546269002458 MgtE intracellular N domain; Region: MgtE_N; cl15244 546269002459 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 546269002460 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 546269002461 Divalent cation transporter; Region: MgtE; cl00786 546269002462 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 546269002463 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 546269002464 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 546269002465 protein binding site [polypeptide binding]; other site 546269002466 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546269002467 seryl-tRNA synthetase; Provisional; Region: PRK05431 546269002468 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 546269002469 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 546269002470 dimer interface [polypeptide binding]; other site 546269002471 active site 546269002472 motif 1; other site 546269002473 motif 2; other site 546269002474 motif 3; other site 546269002475 NMT1-like family; Region: NMT1_2; cl15260 546269002476 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 546269002477 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 546269002478 metal binding site [ion binding]; metal-binding site 546269002479 putative dimer interface [polypeptide binding]; other site 546269002480 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 546269002481 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 546269002482 catalytic residues [active] 546269002483 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546269002484 FtsX-like permease family; Region: FtsX; cl15850 546269002485 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 546269002486 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 546269002487 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 546269002488 Walker A/P-loop; other site 546269002489 ATP binding site [chemical binding]; other site 546269002490 Q-loop/lid; other site 546269002491 ABC transporter signature motif; other site 546269002492 Walker B; other site 546269002493 D-loop; other site 546269002494 H-loop/switch region; other site 546269002495 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 546269002496 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 546269002497 MatE; Region: MatE; cl10513 546269002498 MatE; Region: MatE; cl10513 546269002499 S-layer homology domain; Region: SLH; pfam00395 546269002500 comF family protein; Region: comF; TIGR00201 546269002501 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 546269002502 active site 546269002503 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546269002504 UGMP family protein; Validated; Region: PRK09604 546269002505 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 546269002506 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 546269002507 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 546269002508 Coenzyme A binding pocket [chemical binding]; other site 546269002509 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 546269002510 aspartate aminotransferase; Provisional; Region: PRK05764 546269002511 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 546269002512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269002513 homodimer interface [polypeptide binding]; other site 546269002514 catalytic residue [active] 546269002515 Glucitol operon activator protein (GutM); Region: GutM; cl01890 546269002516 Uncharacterized conserved protein [Function unknown]; Region: COG4938 546269002517 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 546269002518 recombination protein RecR; Reviewed; Region: recR; PRK00076 546269002519 RecR protein; Region: RecR; pfam02132 546269002520 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 546269002521 putative active site [active] 546269002522 putative metal-binding site [ion binding]; other site 546269002523 tetramer interface [polypeptide binding]; other site 546269002524 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 546269002525 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 546269002526 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 546269002527 Walker A motif; other site 546269002528 ATP binding site [chemical binding]; other site 546269002529 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002530 Walker B motif; other site 546269002531 arginine finger; other site 546269002532 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 546269002533 putative deacylase active site [active] 546269002534 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 546269002535 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 546269002536 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 546269002537 Helix-turn-helix domains; Region: HTH; cl00088 546269002538 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 546269002539 Transthyretin-like family; Region: DUF290; pfam01060 546269002540 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 546269002541 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 546269002542 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 546269002543 TraX protein; Region: TraX; cl05434 546269002544 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 546269002545 A new structural DNA glycosylase; Region: AlkD_like; cl11434 546269002546 HEAT repeats; Region: HEAT_2; pfam13646 546269002547 active site 546269002548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002549 helicase/secretion neighborhood ATPase; Region: heli_sec_ATPase; TIGR03819 546269002550 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 546269002551 ATP binding site [chemical binding]; other site 546269002552 putative Mg++ binding site [ion binding]; other site 546269002553 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 546269002554 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 546269002555 nucleotide binding region [chemical binding]; other site 546269002556 ATP-binding site [chemical binding]; other site 546269002557 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 546269002558 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 546269002559 Integrase core domain; Region: rve; cl01316 546269002560 Integrase core domain; Region: rve_3; cl15866 546269002561 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 546269002562 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 546269002563 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 546269002564 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_HprK; cl00270 546269002565 active site 546269002566 metal-binding site [ion binding] 546269002567 nucleotide-binding site [chemical binding]; other site 546269002568 YARHG domain; Region: YARHG; pfam13308 546269002569 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 546269002570 SmpB-tmRNA interface; other site 546269002571 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 546269002572 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546269002573 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546269002574 ribonuclease R; Region: RNase_R; TIGR02063 546269002575 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 546269002576 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 546269002577 RNB domain; Region: RNB; pfam00773 546269002578 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 play an important...; Region: S1_RNase_R; cd04471 546269002579 RNA binding site [nucleotide binding]; other site 546269002580 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546269002581 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 546269002582 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 546269002583 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 546269002584 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 546269002585 active site residue [active] 546269002586 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 546269002587 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 546269002588 FeS/SAM binding site; other site 546269002589 HemN C-terminal domain; Region: HemN_C; pfam06969 546269002590 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 546269002591 S-layer homology domain; Region: SLH; pfam00395 546269002592 S-layer homology domain; Region: SLH; pfam00395 546269002593 S-layer homology domain; Region: SLH; pfam00395 546269002594 S-layer homology domain; Region: SLH; pfam00395 546269002595 S-layer homology domain; Region: SLH; pfam00395 546269002596 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 546269002597 active site 546269002598 8-oxo-dGMP binding site [chemical binding]; other site 546269002599 nudix motif; other site 546269002600 metal binding site [ion binding]; metal-binding site 546269002601 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 546269002602 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 546269002603 G1 box; other site 546269002604 GTP/Mg2+ binding site [chemical binding]; other site 546269002605 Switch I region; other site 546269002606 G2 box; other site 546269002607 G3 box; other site 546269002608 Switch II region; other site 546269002609 G4 box; other site 546269002610 G5 box; other site 546269002611 Nucleoside recognition; Region: Gate; cl00486 546269002612 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 546269002613 Nucleoside recognition; Region: Gate; cl00486 546269002614 FeoA domain; Region: FeoA; cl00838 546269002615 FeoA domain; Region: FeoA; cl00838 546269002616 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 546269002617 MgtE intracellular N domain; Region: MgtE_N; cl15244 546269002618 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 546269002619 Divalent cation transporter; Region: MgtE; cl00786 546269002620 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 546269002621 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 546269002622 putative ADP-ribose binding site [chemical binding]; other site 546269002623 putative active site [active] 546269002624 DKNYY family; Region: DKNYY; pfam13644 546269002625 DKNYY family; Region: DKNYY; pfam13644 546269002626 Phospholipid methyltransferase; Region: PEMT; cl00763 546269002627 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 546269002628 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 546269002629 alanine racemase; Reviewed; Region: alr; PRK00053 546269002630 active site 546269002631 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 546269002632 dimer interface [polypeptide binding]; other site 546269002633 substrate binding site [chemical binding]; other site 546269002634 catalytic residues [active] 546269002635 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 546269002636 Short C-terminal domain; Region: SHOCT; cl01373 546269002637 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 546269002638 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 546269002639 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 546269002640 active site 546269002641 HIGH motif; other site 546269002642 nucleotide binding site [chemical binding]; other site 546269002643 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 546269002644 active site 546269002645 KMSKS motif; other site 546269002646 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 546269002647 tRNA binding surface [nucleotide binding]; other site 546269002648 anticodon binding site; other site 546269002649 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269002650 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269002651 heat shock protein 90; Provisional; Region: PRK05218 546269002652 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 546269002653 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 546269002654 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 546269002655 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 546269002656 active site 546269002657 catalytic site [active] 546269002658 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 546269002659 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 546269002660 Family description; Region: UvrD_C_2; cl15862 546269002661 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 546269002662 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 546269002663 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 546269002664 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 546269002665 catalytic triad [active] 546269002666 conserved cis-peptide bond; other site 546269002667 multifunctional aminopeptidase A; Provisional; Region: PRK00913 546269002668 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 546269002669 interface (dimer of trimers) [polypeptide binding]; other site 546269002670 Substrate-binding/catalytic site; other site 546269002671 Zn-binding sites [ion binding]; other site 546269002672 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 546269002673 DNA-binding site [nucleotide binding]; DNA binding site 546269002674 FCD domain; Region: FCD; cl11656 546269002675 Arginine degradation protein (predicted deacylase) [Amino acid transport and metabolism]; Region: RocB; COG4187 546269002676 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 546269002677 putative metal binding site [ion binding]; other site 546269002678 putative dimer interface [polypeptide binding]; other site 546269002679 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 546269002680 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 546269002681 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 546269002682 Amidinotransferase; Region: Amidinotransf; cl12043 546269002683 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 546269002684 Amidinotransferase; Region: Amidinotransf; cl12043 546269002685 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 546269002686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 546269002687 Nucleoside recognition; Region: Gate; cl00486 546269002688 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546269002689 Helix-turn-helix domains; Region: HTH; cl00088 546269002690 Integrase core domain; Region: rve; cl01316 546269002691 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 546269002692 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 546269002693 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 546269002694 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 546269002695 RNA binding site [nucleotide binding]; other site 546269002696 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 546269002697 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 546269002698 FeS/SAM binding site; other site 546269002699 G5 domain; Region: G5; pfam07501 546269002700 NlpC/P60 family; Region: NLPC_P60; cl11438 546269002701 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 546269002702 putative active site [active] 546269002703 putative metal binding site [ion binding]; other site 546269002704 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 546269002705 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 546269002706 Acetokinase family; Region: Acetate_kinase; cl01029 546269002707 propionate/acetate kinase; Provisional; Region: PRK12379 546269002708 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 546269002709 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 546269002710 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 546269002711 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 546269002712 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 546269002713 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 546269002714 dimerization interface [polypeptide binding]; other site 546269002715 DPS ferroxidase diiron center [ion binding]; other site 546269002716 ion pore; other site 546269002717 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 546269002718 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 546269002719 motif II; other site 546269002720 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 546269002721 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269002722 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 546269002723 Walker A/P-loop; other site 546269002724 ATP binding site [chemical binding]; other site 546269002725 Q-loop/lid; other site 546269002726 ABC transporter signature motif; other site 546269002727 Walker B; other site 546269002728 D-loop; other site 546269002729 H-loop/switch region; other site 546269002730 4Fe-4S binding domain; Region: Fer4; cl02805 546269002731 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 546269002732 4Fe-4S binding domain; Region: Fer4; cl02805 546269002733 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 546269002734 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 546269002735 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 546269002736 NAD(P) binding site [chemical binding]; other site 546269002737 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 546269002738 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 546269002739 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 546269002740 Walker A motif; other site 546269002741 ATP binding site [chemical binding]; other site 546269002742 Walker B motif; other site 546269002743 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 546269002744 Clp protease; Region: CLP_protease; pfam00574 546269002745 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 546269002746 oligomer interface [polypeptide binding]; other site 546269002747 active site residues [active] 546269002748 trigger factor; Provisional; Region: tig; PRK01490 546269002749 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 546269002750 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 546269002751 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546269002752 Helix-turn-helix domains; Region: HTH; cl00088 546269002753 Integrase core domain; Region: rve; cl01316 546269002754 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 546269002755 putative active site [active] 546269002756 general stress protein 13; Validated; Region: PRK08059 546269002757 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 546269002758 RNA binding site [nucleotide binding]; other site 546269002759 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 546269002760 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 546269002761 enolase; Provisional; Region: eno; PRK00077 546269002762 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 546269002763 dimer interface [polypeptide binding]; other site 546269002764 metal binding site [ion binding]; metal-binding site 546269002765 substrate binding pocket [chemical binding]; other site 546269002766 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 546269002767 substrate binding site [chemical binding]; other site 546269002768 dimer interface [polypeptide binding]; other site 546269002769 catalytic triad [active] 546269002770 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 546269002771 Phosphoglycerate kinase; Region: PGK; pfam00162 546269002772 substrate binding site [chemical binding]; other site 546269002773 hinge regions; other site 546269002774 ADP binding site [chemical binding]; other site 546269002775 catalytic site [active] 546269002776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269002777 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 546269002778 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 546269002779 Glutaminase; Region: Glutaminase; cl00907 546269002780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002781 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 546269002782 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 546269002783 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 546269002784 ATP binding site [chemical binding]; other site 546269002785 Mg2+ binding site [ion binding]; other site 546269002786 G-X-G motif; other site 546269002787 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 546269002788 ATP binding site [chemical binding]; other site 546269002789 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 546269002790 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 546269002791 MutS domain I; Region: MutS_I; pfam01624 546269002792 MutS domain II; Region: MutS_II; pfam05188 546269002793 MutS family domain IV; Region: MutS_IV; pfam05190 546269002794 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 546269002795 Walker A/P-loop; other site 546269002796 ATP binding site [chemical binding]; other site 546269002797 Q-loop/lid; other site 546269002798 ABC transporter signature motif; other site 546269002799 Walker B; other site 546269002800 D-loop; other site 546269002801 H-loop/switch region; other site 546269002802 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 546269002803 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 546269002804 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 546269002805 FeS/SAM binding site; other site 546269002806 TRAM domain; Region: TRAM; cl01282 546269002807 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 546269002808 putative dimer interface [polypeptide binding]; other site 546269002809 catalytic triad [active] 546269002810 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 546269002811 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 546269002812 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 546269002813 Domain of unknown function (DUF814); Region: DUF814; pfam05670 546269002814 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 546269002815 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 546269002816 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 546269002817 active site 546269002818 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 546269002819 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 546269002820 Substrate binding site; other site 546269002821 Mg++ binding site; other site 546269002822 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 546269002823 active site 546269002824 substrate binding site [chemical binding]; other site 546269002825 CoA binding site [chemical binding]; other site 546269002826 FOG: CBS domain [General function prediction only]; Region: COG0517 546269002827 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 546269002828 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 546269002829 Domain of unknown function DUF21; Region: DUF21; pfam01595 546269002830 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 546269002831 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 546269002832 Transporter associated domain; Region: CorC_HlyC; cl08393 546269002833 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 546269002834 Septum formation initiator; Region: DivIC; cl11433 546269002835 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 546269002836 RNA binding surface [nucleotide binding]; other site 546269002837 Predicted methyltransferases [General function prediction only]; Region: COG0313 546269002838 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 546269002839 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 546269002840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269002841 PSP1 C-terminal conserved region; Region: PSP1; cl00770 546269002842 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 546269002843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002844 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 546269002845 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 546269002846 TMP-binding site; other site 546269002847 ATP-binding site [chemical binding]; other site 546269002848 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 546269002849 homotrimer interaction site [polypeptide binding]; other site 546269002850 putative active site [active] 546269002851 SpoVG; Region: SpoVG; cl00915 546269002852 CAAX protease self-immunity; Region: Abi; cl00558 546269002853 pur operon repressor; Provisional; Region: PRK09213 546269002854 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 546269002855 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 546269002856 active site 546269002857 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 546269002858 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 546269002859 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546269002860 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 546269002861 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 546269002862 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 546269002863 Transglycosylase; Region: Transgly; cl07896 546269002864 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 546269002865 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 546269002866 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546269002867 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 546269002868 ATP-grasp domain; Region: ATP-grasp_4; cl03087 546269002869 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 546269002870 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 546269002871 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 546269002872 Predicted membrane protein [Function unknown]; Region: COG4129 546269002873 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 546269002874 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 546269002875 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269002876 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 546269002877 NAD(P) binding site [chemical binding]; other site 546269002878 active site 546269002879 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 protein; Region: CSP_CDS; cd04458 546269002880 DNA-binding site [nucleotide binding]; DNA binding site 546269002881 RNA-binding motif; other site 546269002882 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 546269002883 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 546269002884 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 catalyze...; Region: LT_GEWL; cd00254 546269002885 N-acetyl-D-glucosamine binding site [chemical binding]; other site 546269002886 catalytic residue [active] 546269002887 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 546269002888 dephospho-CoA kinase; Region: TIGR00152 546269002889 CoA-binding site [chemical binding]; other site 546269002890 DNA polymerase I; Provisional; Region: PRK05755 546269002891 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 546269002892 active site 546269002893 metal binding site 1 [ion binding]; metal-binding site 546269002894 putative 5' ssDNA interaction site; other site 546269002895 metal binding site 3; metal-binding site 546269002896 metal binding site 2 [ion binding]; metal-binding site 546269002897 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 546269002898 putative DNA binding site [nucleotide binding]; other site 546269002899 putative metal binding site [ion binding]; other site 546269002900 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 546269002901 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 546269002902 active site 546269002903 DNA binding site [nucleotide binding] 546269002904 catalytic site [active] 546269002905 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269002906 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 546269002907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269002908 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 546269002909 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 546269002910 TRAM domain; Region: TRAM; cl01282 546269002911 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 546269002912 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 546269002913 S-adenosylmethionine binding site [chemical binding]; other site 546269002914 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 546269002915 catalytic residues [active] 546269002916 catalytic nucleophile [active] 546269002917 Recombinase; Region: Recombinase; pfam07508 546269002918 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 546269002919 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 546269002920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269002921 catalytic residue [active] 546269002922 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 546269002923 ORF6N domain; Region: ORF6N; pfam10543 546269002924 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 546269002925 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 546269002926 catalytic residues [active] 546269002927 Recombinase; Region: Recombinase; pfam07508 546269002928 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 546269002929 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 546269002930 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 546269002931 catalytic residues [active] 546269002932 catalytic nucleophile [active] 546269002933 Recombinase; Region: Recombinase; pfam07508 546269002934 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 546269002935 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 546269002936 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 546269002937 catalytic residues [active] 546269002938 catalytic nucleophile [active] 546269002939 Recombinase; Region: Recombinase; pfam07508 546269002940 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 546269002941 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 546269002942 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 546269002943 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002944 Q-loop/lid; other site 546269002945 ABC transporter signature motif; other site 546269002946 Walker B; other site 546269002947 D-loop; other site 546269002948 H-loop/switch region; other site 546269002949 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 546269002950 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 546269002951 Int/Topo IB signature motif; other site 546269002952 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 546269002953 Helix-turn-helix domain; Region: HTH_16; pfam12645 546269002954 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 546269002955 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 546269002956 DNA binding residues [nucleotide binding] 546269002957 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 546269002958 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 546269002959 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 546269002960 G1 box; other site 546269002961 putative GEF interaction site [polypeptide binding]; other site 546269002962 GTP/Mg2+ binding site [chemical binding]; other site 546269002963 Switch I region; other site 546269002964 G2 box; other site 546269002965 G3 box; other site 546269002966 Switch II region; other site 546269002967 G4 box; other site 546269002968 G5 box; other site 546269002969 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 546269002970 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 546269002971 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 546269002972 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 546269002973 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 546269002974 NlpC/P60 family; Region: NLPC_P60; cl11438 546269002975 Haemolysin-III related; Region: HlyIII; cl03831 546269002976 MAP7 (E-MAP-115) family; Region: MAP7; pfam05672 546269002977 AAA-like domain; Region: AAA_10; pfam12846 546269002978 TcpE family; Region: TcpE; pfam12648 546269002979 Antirestriction protein (ArdA); Region: ArdA; cl01953 546269002980 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 546269002981 non-specific DNA binding site [nucleotide binding]; other site 546269002982 salt bridge; other site 546269002983 sequence-specific DNA binding site [nucleotide binding]; other site 546269002984 Replication initiation factor; Region: Rep_trans; pfam02486 546269002985 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002986 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 546269002987 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 546269002988 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 546269002989 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 546269002990 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 546269002991 Walker A/P-loop; other site 546269002992 ATP binding site [chemical binding]; other site 546269002993 Q-loop/lid; other site 546269002994 ABC transporter signature motif; other site 546269002995 Walker B; other site 546269002996 D-loop; other site 546269002997 H-loop/switch region; other site 546269002998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269002999 Walker A/P-loop; other site 546269003000 ATP binding site [chemical binding]; other site 546269003001 Cobalt transport protein; Region: CbiQ; cl00463 546269003002 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 546269003003 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 546269003004 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269003005 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003006 Walker A/P-loop; other site 546269003007 ATP binding site [chemical binding]; other site 546269003008 Q-loop/lid; other site 546269003009 ABC transporter signature motif; other site 546269003010 Walker B; other site 546269003011 D-loop; other site 546269003012 H-loop/switch region; other site 546269003013 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 546269003014 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546269003015 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003016 Walker A/P-loop; other site 546269003017 ATP binding site [chemical binding]; other site 546269003018 Q-loop/lid; other site 546269003019 ABC transporter signature motif; other site 546269003020 Walker B; other site 546269003021 D-loop; other site 546269003022 H-loop/switch region; other site 546269003023 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 546269003024 Helix-turn-helix domains; Region: HTH; cl00088 546269003025 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 546269003026 V-type ATPase 116kDa subunit family; Region: V_ATPase_I; pfam01496 546269003027 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269003028 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 546269003029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003032 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 546269003033 DNA topoisomerase III; Provisional; Region: PRK07726 546269003034 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 546269003035 active site 546269003036 putative interdomain interaction site [polypeptide binding]; other site 546269003037 putative metal-binding site [ion binding]; other site 546269003038 putative nucleotide binding site [chemical binding]; other site 546269003039 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 546269003040 domain I; other site 546269003041 DNA binding groove [nucleotide binding] 546269003042 phosphate binding site [ion binding]; other site 546269003043 domain II; other site 546269003044 domain III; other site 546269003045 nucleotide binding site [chemical binding]; other site 546269003046 catalytic site [active] 546269003047 domain IV; other site 546269003048 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 546269003049 NlpC/P60 family; Region: NLPC_P60; cl11438 546269003050 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 546269003051 AAA-like domain; Region: AAA_10; pfam12846 546269003052 Domain of unknown function DUF87; Region: DUF87; pfam01935 546269003053 PrgI family protein; Region: PrgI; pfam12666 546269003054 Maff2 family; Region: Maff2; pfam12750 546269003055 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 546269003056 generic binding surface II; other site 546269003057 generic binding surface I; other site 546269003058 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 546269003059 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003060 Walker A motif; other site 546269003061 ATP binding site [chemical binding]; other site 546269003062 Walker B motif; other site 546269003063 potential frameshift: common BLAST hit: gi|256821181|ref|YP_003142380.1| prophage antirepressor 546269003064 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 546269003065 BRO family, N-terminal domain; Region: Bro-N; cl10591 546269003066 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 546269003067 DJ-1 family protein; Region: not_thiJ; TIGR01383 546269003068 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 546269003069 conserved cys residue [active] 546269003070 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 546269003071 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 546269003072 dimer interface [polypeptide binding]; other site 546269003073 active site 546269003074 metal binding site [ion binding]; metal-binding site 546269003075 CAAX protease self-immunity; Region: Abi; cl00558 546269003076 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546269003077 Isochorismatase family; Region: Isochorismatase; pfam00857 546269003078 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 546269003079 catalytic triad [active] 546269003080 conserved cis-peptide bond; other site 546269003081 pyruvate phosphate dikinase; Provisional; Region: PRK09279 546269003082 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 546269003083 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 546269003084 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 546269003085 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 546269003086 Helix-turn-helix domains; Region: HTH; cl00088 546269003087 FOG: CBS domain [General function prediction only]; Region: COG0517 546269003088 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 546269003089 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 546269003090 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 546269003091 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546269003092 catalytic residue [active] 546269003093 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 546269003094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269003095 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 546269003096 Transposase IS200 like; Region: Y1_Tnp; cl00848 546269003097 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 546269003098 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 546269003099 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 546269003100 Recombination protein O N terminal; Region: RecO_N; cl15812 546269003101 Recombination protein O C terminal; Region: RecO_C; pfam02565 546269003102 GTPase Era; Reviewed; Region: era; PRK00089 546269003103 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 546269003104 G1 box; other site 546269003105 GTP/Mg2+ binding site [chemical binding]; other site 546269003106 Switch I region; other site 546269003107 G2 box; other site 546269003108 Switch II region; other site 546269003109 G3 box; other site 546269003110 G4 box; other site 546269003111 G5 box; other site 546269003112 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 546269003113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003114 ribonuclease PH; Reviewed; Region: rph; PRK00173 546269003115 Ribonuclease PH; Region: RNase_PH_bact; cd11362 546269003116 hexamer interface [polypeptide binding]; other site 546269003117 active site 546269003118 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 546269003119 active site 546269003120 dimerization interface [polypeptide binding]; other site 546269003121 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269003122 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 546269003123 active site 546269003124 metal binding site [ion binding]; metal-binding site 546269003125 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 546269003126 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 546269003127 homodimer interface [polypeptide binding]; other site 546269003128 substrate-cofactor binding pocket; other site 546269003129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269003130 catalytic residue [active] 546269003131 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 546269003132 dimer interface [polypeptide binding]; other site 546269003133 phosphorylation site [posttranslational modification] 546269003134 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 546269003135 ATP binding site [chemical binding]; other site 546269003136 Mg2+ binding site [ion binding]; other site 546269003137 G-X-G motif; other site 546269003138 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 546269003139 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 546269003140 active site 546269003141 phosphorylation site [posttranslational modification] 546269003142 intermolecular recognition site; other site 546269003143 dimerization interface [polypeptide binding]; other site 546269003144 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 546269003145 DNA binding site [nucleotide binding] 546269003146 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 546269003147 RNA/DNA hybrid binding site [nucleotide binding]; other site 546269003148 active site 546269003149 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 546269003150 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 546269003151 GTP/Mg2+ binding site [chemical binding]; other site 546269003152 G4 box; other site 546269003153 G5 box; other site 546269003154 G1 box; other site 546269003155 Switch I region; other site 546269003156 G2 box; other site 546269003157 G3 box; other site 546269003158 Switch II region; other site 546269003159 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 546269003160 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 546269003161 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 546269003162 DctM-like transporters; Region: DctM; pfam06808 546269003163 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 546269003164 NMT1-like family; Region: NMT1_2; cl15260 546269003165 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 546269003166 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 546269003167 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 546269003168 putative RNA binding site [nucleotide binding]; other site 546269003169 Asp23 family; Region: Asp23; cl00574 546269003170 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 546269003171 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 546269003172 RmuC family; Region: RmuC; pfam02646 546269003173 L-aspartate dehydrogenase; Provisional; Region: PRK13303 546269003174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269003175 Domain of unknown function DUF108; Region: DUF108; pfam01958 546269003176 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 546269003177 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 546269003178 dimerization interface [polypeptide binding]; other site 546269003179 active site 546269003180 Quinolinate synthetase A protein; Region: NadA; cl00420 546269003181 Restriction endonuclease; Region: Mrr_cat; cl00516 546269003182 HRDC domain; Region: HRDC; cl02578 546269003183 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 546269003184 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 546269003185 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 546269003186 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 546269003187 dimer interface [polypeptide binding]; other site 546269003188 conserved gate region; other site 546269003189 putative PBP binding loops; other site 546269003190 ABC-ATPase subunit interface; other site 546269003191 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 546269003192 dimer interface [polypeptide binding]; other site 546269003193 conserved gate region; other site 546269003194 putative PBP binding loops; other site 546269003195 ABC-ATPase subunit interface; other site 546269003196 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 546269003197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003198 Walker A/P-loop; other site 546269003199 ATP binding site [chemical binding]; other site 546269003200 Q-loop/lid; other site 546269003201 ABC transporter signature motif; other site 546269003202 Walker B; other site 546269003203 D-loop; other site 546269003204 H-loop/switch region; other site 546269003205 TOBE domain; Region: TOBE_2; cl01440 546269003206 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269003207 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 546269003208 Clp amino terminal domain; Region: Clp_N; pfam02861 546269003209 Clp amino terminal domain; Region: Clp_N; pfam02861 546269003210 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 546269003211 Walker A motif; other site 546269003212 ATP binding site [chemical binding]; other site 546269003213 Walker B motif; other site 546269003214 arginine finger; other site 546269003215 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 546269003216 Walker A motif; other site 546269003217 ATP binding site [chemical binding]; other site 546269003218 Walker B motif; other site 546269003219 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 546269003220 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 546269003221 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 546269003222 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 546269003223 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 546269003224 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 546269003225 active site 1 [active] 546269003226 active site 2 [active] 546269003227 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 546269003228 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 546269003229 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 546269003230 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 546269003231 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 546269003232 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 546269003233 FMN-binding domain; Region: FMN_bind; cl01081 546269003234 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269003235 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 546269003236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269003237 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 546269003238 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 546269003239 GTP-binding protein Der; Reviewed; Region: PRK00093 546269003240 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 546269003241 G1 box; other site 546269003242 GTP/Mg2+ binding site [chemical binding]; other site 546269003243 Switch I region; other site 546269003244 G2 box; other site 546269003245 Switch II region; other site 546269003246 G3 box; other site 546269003247 G4 box; other site 546269003248 G5 box; other site 546269003249 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 546269003250 G1 box; other site 546269003251 GTP/Mg2+ binding site [chemical binding]; other site 546269003252 Switch I region; other site 546269003253 G2 box; other site 546269003254 G3 box; other site 546269003255 Switch II region; other site 546269003256 G4 box; other site 546269003257 G5 box; other site 546269003258 serine O-acetyltransferase; Region: cysE; TIGR01172 546269003259 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 546269003260 trimer interface [polypeptide binding]; other site 546269003261 active site 546269003262 substrate binding site [chemical binding]; other site 546269003263 CoA binding site [chemical binding]; other site 546269003264 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 546269003265 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 546269003266 dimer interface [polypeptide binding]; other site 546269003267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269003268 catalytic residue [active] 546269003269 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 546269003270 Predicted permease; Region: DUF318; pfam03773 546269003271 Predicted permeases [General function prediction only]; Region: COG0701 546269003272 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 546269003273 Transposase IS200 like; Region: Y1_Tnp; cl00848 546269003274 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 546269003275 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 546269003276 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 546269003277 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 546269003278 Ligand binding site [chemical binding]; other site 546269003279 Electron transfer flavoprotein domain; Region: ETF; pfam01012 546269003280 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 546269003281 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 546269003282 FAD binding site [chemical binding]; other site 546269003283 homotetramer interface [polypeptide binding]; other site 546269003284 substrate binding pocket [chemical binding]; other site 546269003285 catalytic base [active] 546269003286 putative acyltransferase; Provisional; Region: PRK05790 546269003287 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 546269003288 dimer interface [polypeptide binding]; other site 546269003289 active site 546269003290 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 546269003291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269003292 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 546269003293 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 546269003294 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 546269003295 substrate binding site [chemical binding]; other site 546269003296 oxyanion hole (OAH) forming residues; other site 546269003297 trimer interface [polypeptide binding]; other site 546269003298 Protein of unknown function (DUF523); Region: DUF523; cl00733 546269003299 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 546269003300 23S rRNA binding site [nucleotide binding]; other site 546269003301 L21 binding site [polypeptide binding]; other site 546269003302 L13 binding site [polypeptide binding]; other site 546269003303 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 546269003304 Translation initiation factor 3 (IF-3) [Translation, ribosomal structure and biogenesis]; Region: InfC; COG0290 546269003305 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 546269003306 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 546269003307 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 546269003308 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 546269003309 RNA binding site [nucleotide binding]; other site 546269003310 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 546269003311 RNA binding site [nucleotide binding]; other site 546269003312 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 546269003313 RNA binding site [nucleotide binding]; other site 546269003314 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 546269003315 RNA binding site [nucleotide binding]; other site 546269003316 LytB protein; Region: LYTB; cl00507 546269003317 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 546269003318 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 546269003319 putative acyl-acceptor binding pocket; other site 546269003320 cytidylate kinase; Provisional; Region: cmk; PRK00023 546269003321 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 546269003322 CMP-binding site; other site 546269003323 The sites determining sugar specificity; other site 546269003324 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 546269003325 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 546269003326 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 546269003327 putative active site [active] 546269003328 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 546269003329 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 546269003330 RNA binding surface [nucleotide binding]; other site 546269003331 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 546269003332 active site 546269003333 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 546269003334 non-specific DNA binding site [nucleotide binding]; other site 546269003335 salt bridge; other site 546269003336 sequence-specific DNA binding site [nucleotide binding]; other site 546269003337 Cupin domain; Region: Cupin_2; cl09118 546269003338 aspartate kinase; Reviewed; Region: PRK06635 546269003339 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 546269003340 putative nucleotide binding site [chemical binding]; other site 546269003341 putative catalytic residues [active] 546269003342 putative Mg ion binding site [ion binding]; other site 546269003343 putative aspartate binding site [chemical binding]; other site 546269003344 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 546269003345 putative allosteric regulatory site; other site 546269003346 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 546269003347 putative allosteric regulatory residue; other site 546269003348 homoserine kinase; Provisional; Region: PRK01212 546269003349 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 546269003350 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 546269003351 threonine synthase; Reviewed; Region: PRK06721 546269003352 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 546269003353 homodimer interface [polypeptide binding]; other site 546269003354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269003355 catalytic residue [active] 546269003356 homoserine dehydrogenase; Provisional; Region: PRK06349 546269003357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269003358 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 546269003359 elongation factor Tu; Reviewed; Region: PRK00049 546269003360 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 546269003361 G1 box; other site 546269003362 GEF interaction site [polypeptide binding]; other site 546269003363 GTP/Mg2+ binding site [chemical binding]; other site 546269003364 Switch I region; other site 546269003365 G2 box; other site 546269003366 G3 box; other site 546269003367 Switch II region; other site 546269003368 G4 box; other site 546269003369 G5 box; other site 546269003370 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 546269003371 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 546269003372 Antibiotic Binding Site [chemical binding]; other site 546269003373 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 546269003374 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 546269003375 dimer interface [polypeptide binding]; other site 546269003376 decamer (pentamer of dimers) interface [polypeptide binding]; other site 546269003377 catalytic triad [active] 546269003378 peroxidatic and resolving cysteines [active] 546269003379 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 546269003380 amidase catalytic site [active] 546269003381 Zn binding residues [ion binding]; other site 546269003382 substrate binding site [chemical binding]; other site 546269003383 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 546269003384 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 546269003385 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 546269003386 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 546269003387 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 546269003388 metal binding site [ion binding]; metal-binding site 546269003389 dimer interface [polypeptide binding]; other site 546269003390 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 546269003391 Transcriptional regulator [Transcription]; Region: IclR; COG1414 546269003392 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 546269003393 S-adenosylmethionine binding site [chemical binding]; other site 546269003394 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 546269003395 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 546269003396 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 546269003397 FMN binding site [chemical binding]; other site 546269003398 dimer interface [polypeptide binding]; other site 546269003399 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 546269003400 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 546269003401 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 546269003402 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 546269003403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269003404 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 546269003405 Transposase IS200 like; Region: Y1_Tnp; cl00848 546269003406 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269003407 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269003408 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 546269003409 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 546269003410 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 546269003411 ABC transporter; Region: ABC_tran_2; pfam12848 546269003412 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 546269003413 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 546269003414 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 546269003415 active site 546269003416 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 546269003417 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 546269003418 heterodimer interface [polypeptide binding]; other site 546269003419 active site 546269003420 FMN binding site [chemical binding]; other site 546269003421 homodimer interface [polypeptide binding]; other site 546269003422 substrate binding site [chemical binding]; other site 546269003423 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 546269003424 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 546269003425 FAD binding pocket [chemical binding]; other site 546269003426 FAD binding motif [chemical binding]; other site 546269003427 phosphate binding motif [ion binding]; other site 546269003428 beta-alpha-beta structure motif; other site 546269003429 NAD binding pocket [chemical binding]; other site 546269003430 Iron coordination center [ion binding]; other site 546269003431 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 contains two...; Region: OMP_decarboxylase_like; cd04725 546269003432 active site 546269003433 dimer interface [polypeptide binding]; other site 546269003434 dihydroorotase; Validated; Region: pyrC; PRK09357 546269003435 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 546269003436 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 546269003437 active site 546269003438 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 546269003439 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 546269003440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269003441 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 546269003442 Superoxide reductase-like (SORL) domain, class II; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_classII; cd03172 546269003443 non-heme iron binding site [ion binding]; other site 546269003444 tetramer interface [polypeptide binding]; other site 546269003445 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 546269003446 Catalytic site [active] 546269003447 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 546269003448 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 546269003449 active site 546269003450 phosphorylation site [posttranslational modification] 546269003451 intermolecular recognition site; other site 546269003452 dimerization interface [polypeptide binding]; other site 546269003453 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 546269003454 dimerization interface [polypeptide binding]; other site 546269003455 DNA binding residues [nucleotide binding] 546269003456 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 546269003457 Histidine kinase; Region: HisKA_3; pfam07730 546269003458 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 546269003459 ATP binding site [chemical binding]; other site 546269003460 Mg2+ binding site [ion binding]; other site 546269003461 G-X-G motif; other site 546269003462 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 546269003463 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 546269003464 peptide binding site [polypeptide binding]; other site 546269003465 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 546269003466 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 546269003467 Walker A/P-loop; other site 546269003468 ATP binding site [chemical binding]; other site 546269003469 Q-loop/lid; other site 546269003470 ABC transporter signature motif; other site 546269003471 Walker B; other site 546269003472 D-loop; other site 546269003473 H-loop/switch region; other site 546269003474 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 546269003475 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 546269003476 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 546269003477 Walker A/P-loop; other site 546269003478 ATP binding site [chemical binding]; other site 546269003479 Q-loop/lid; other site 546269003480 ABC transporter signature motif; other site 546269003481 Walker B; other site 546269003482 D-loop; other site 546269003483 H-loop/switch region; other site 546269003484 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 546269003485 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 546269003486 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 546269003487 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 546269003488 dimer interface [polypeptide binding]; other site 546269003489 conserved gate region; other site 546269003490 putative PBP binding loops; other site 546269003491 ABC-ATPase subunit interface; other site 546269003492 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 546269003493 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 546269003494 dimer interface [polypeptide binding]; other site 546269003495 conserved gate region; other site 546269003496 putative PBP binding loops; other site 546269003497 ABC-ATPase subunit interface; other site 546269003498 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 546269003499 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 546269003500 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 546269003501 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 546269003502 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 546269003503 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 546269003504 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 546269003505 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 546269003506 G-loop; other site 546269003507 DNA binding site [nucleotide binding] 546269003508 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 546269003509 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 546269003510 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 546269003511 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 546269003512 RPB12 interaction site [polypeptide binding]; other site 546269003513 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 546269003514 RPB10 interaction site [polypeptide binding]; other site 546269003515 RPB1 interaction site [polypeptide binding]; other site 546269003516 RPB11 interaction site [polypeptide binding]; other site 546269003517 RPB3 interaction site [polypeptide binding]; other site 546269003518 RPB12 interaction site [polypeptide binding]; other site 546269003519 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 546269003520 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 546269003521 RimM N-terminal domain; Region: RimM; pfam01782 546269003522 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 546269003523 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 546269003524 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 546269003525 signal recognition particle protein; Provisional; Region: PRK10867 546269003526 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 546269003527 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 546269003528 P loop; other site 546269003529 GTP binding site [chemical binding]; other site 546269003530 Signal peptide binding domain; Region: SRP_SPB; pfam02978 546269003531 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 546269003532 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 546269003533 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 546269003534 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 546269003535 alphaNTD homodimer interface [polypeptide binding]; other site 546269003536 alphaNTD - beta interaction site [polypeptide binding]; other site 546269003537 alphaNTD - beta' interaction site [polypeptide binding]; other site 546269003538 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 546269003539 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 546269003540 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 546269003541 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 546269003542 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 546269003543 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 546269003544 rRNA binding site [nucleotide binding]; other site 546269003545 predicted 30S ribosome binding site; other site 546269003546 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 546269003547 active site 546269003548 adenylate kinase; Reviewed; Region: adk; PRK00279 546269003549 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 546269003550 AMP-binding site [chemical binding]; other site 546269003551 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 546269003552 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 546269003553 SecY translocase; Region: SecY; pfam00344 546269003554 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 546269003555 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 546269003556 23S rRNA binding site [nucleotide binding]; other site 546269003557 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 546269003558 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 546269003559 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 546269003560 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 546269003561 5S rRNA interface [nucleotide binding]; other site 546269003562 L27 interface [polypeptide binding]; other site 546269003563 23S rRNA interface [nucleotide binding]; other site 546269003564 L5 interface [polypeptide binding]; other site 546269003565 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 546269003566 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 546269003567 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 546269003568 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 546269003569 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 546269003570 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 546269003571 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 546269003572 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 546269003573 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 546269003574 KOW motif; Region: KOW; cl00354 546269003575 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 546269003576 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 546269003577 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 546269003578 putative translocon interaction site; other site 546269003579 23S rRNA interface [nucleotide binding]; other site 546269003580 signal recognition particle (SRP54) interaction site; other site 546269003581 L23 interface [polypeptide binding]; other site 546269003582 trigger factor interaction site; other site 546269003583 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 546269003584 23S rRNA interface [nucleotide binding]; other site 546269003585 5S rRNA interface [nucleotide binding]; other site 546269003586 putative antibiotic binding site [chemical binding]; other site 546269003587 L25 interface [polypeptide binding]; other site 546269003588 L27 interface [polypeptide binding]; other site 546269003589 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 546269003590 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 546269003591 G-X-X-G motif; other site 546269003592 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 546269003593 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 546269003594 putative translocon binding site; other site 546269003595 protein-rRNA interface [nucleotide binding]; other site 546269003596 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 546269003597 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 546269003598 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 546269003599 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 546269003600 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 546269003601 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 546269003602 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 546269003603 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 546269003604 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 546269003605 catalytic core [active] 546269003606 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 catalyze...; Region: LT_GEWL; cd00254 546269003607 N-acetyl-D-glucosamine binding site [chemical binding]; other site 546269003608 catalytic residue [active] 546269003609 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 546269003610 core dimer interface [polypeptide binding]; other site 546269003611 peripheral dimer interface [polypeptide binding]; other site 546269003612 L10 interface [polypeptide binding]; other site 546269003613 L11 interface [polypeptide binding]; other site 546269003614 putative EF-Tu interaction site [polypeptide binding]; other site 546269003615 putative EF-G interaction site [polypeptide binding]; other site 546269003616 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 546269003617 23S rRNA interface [nucleotide binding]; other site 546269003618 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 546269003619 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 546269003620 mRNA/rRNA interface [nucleotide binding]; other site 546269003621 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 546269003622 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 546269003623 23S rRNA interface [nucleotide binding]; other site 546269003624 L7/L12 interface [polypeptide binding]; other site 546269003625 putative thiostrepton binding site; other site 546269003626 L25 interface [polypeptide binding]; other site 546269003627 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 546269003628 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 546269003629 putative homodimer interface [polypeptide binding]; other site 546269003630 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 546269003631 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 546269003632 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 546269003633 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 546269003634 active site 546269003635 multimer interface [polypeptide binding]; other site 546269003636 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 546269003637 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 546269003638 DNA-binding site [nucleotide binding]; DNA binding site 546269003639 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 546269003640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269003641 homodimer interface [polypeptide binding]; other site 546269003642 catalytic residue [active] 546269003643 biotin synthase; Region: bioB; TIGR00433 546269003644 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 546269003645 FeS/SAM binding site; other site 546269003646 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 546269003647 Staphylococcal nuclease homologues; Region: SNc; smart00318 546269003648 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 546269003649 Catalytic site; other site 546269003650 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 546269003651 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 546269003652 putative ATP binding site [chemical binding]; other site 546269003653 putative substrate interface [chemical binding]; other site 546269003654 hypothetical protein; Provisional; Region: PRK13670 546269003655 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 546269003656 Plant ATP synthase F0; Region: YMF19; cl07975 546269003657 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 546269003658 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 546269003659 active site 546269003660 (T/H)XGH motif; other site 546269003661 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 546269003662 S-adenosylmethionine binding site [chemical binding]; other site 546269003663 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 546269003664 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 546269003665 ATP binding site [chemical binding]; other site 546269003666 putative Mg++ binding site [ion binding]; other site 546269003667 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 546269003668 nucleotide binding region [chemical binding]; other site 546269003669 ATP-binding site [chemical binding]; other site 546269003670 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 546269003671 DAK2 domain; Region: Dak2; cl03685 546269003672 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 546269003673 Asp23 family; Region: Asp23; cl00574 546269003674 Homoserine O-succinyltransferase; Region: HTS; pfam04204 546269003675 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 546269003676 proposed active site lysine [active] 546269003677 conserved cys residue [active] 546269003678 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 546269003679 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 546269003680 homodimer interface [polypeptide binding]; other site 546269003681 substrate-cofactor binding pocket; other site 546269003682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269003683 catalytic residue [active] 546269003684 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 546269003685 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546269003686 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 546269003687 TM2 domain; Region: TM2; cl00984 546269003688 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 546269003689 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 546269003690 FeS/SAM binding site; other site 546269003691 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546269003692 Helix-turn-helix domains; Region: HTH; cl00088 546269003693 Integrase core domain; Region: rve; cl01316 546269003694 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 546269003695 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 546269003696 catalytic motif [active] 546269003697 Zn binding site [ion binding]; other site 546269003698 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 546269003699 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 546269003700 Lumazine binding domain; Region: Lum_binding; pfam00677 546269003701 Lumazine binding domain; Region: Lum_binding; pfam00677 546269003702 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 546269003703 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 546269003704 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 546269003705 dimerization interface [polypeptide binding]; other site 546269003706 active site 546269003707 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 546269003708 homopentamer interface [polypeptide binding]; other site 546269003709 active site 546269003710 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 546269003711 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 546269003712 motif II; other site 546269003713 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 546269003714 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 546269003715 substrate binding pocket [chemical binding]; other site 546269003716 membrane-bound complex binding site; other site 546269003717 hinge residues; other site 546269003718 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 546269003719 dimer interface [polypeptide binding]; other site 546269003720 conserved gate region; other site 546269003721 putative PBP binding loops; other site 546269003722 ABC-ATPase subunit interface; other site 546269003723 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 546269003724 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003725 Walker A/P-loop; other site 546269003726 ATP binding site [chemical binding]; other site 546269003727 Q-loop/lid; other site 546269003728 ABC transporter signature motif; other site 546269003729 Walker B; other site 546269003730 D-loop; other site 546269003731 H-loop/switch region; other site 546269003732 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 546269003733 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 546269003734 active site 546269003735 substrate binding site [chemical binding]; other site 546269003736 metal binding site [ion binding]; metal-binding site 546269003737 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 546269003738 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 546269003739 intersubunit interface [polypeptide binding]; other site 546269003740 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 546269003741 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 546269003742 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 546269003743 ABC-ATPase subunit interface; other site 546269003744 dimer interface [polypeptide binding]; other site 546269003745 putative PBP binding regions; other site 546269003746 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 546269003747 ABC-ATPase subunit interface; other site 546269003748 dimer interface [polypeptide binding]; other site 546269003749 putative PBP binding regions; other site 546269003750 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 546269003751 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 546269003752 Cobalt transport protein; Region: CbiQ; cl00463 546269003753 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 546269003754 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 546269003755 Walker A/P-loop; other site 546269003756 ATP binding site [chemical binding]; other site 546269003757 Q-loop/lid; other site 546269003758 ABC transporter signature motif; other site 546269003759 Walker B; other site 546269003760 D-loop; other site 546269003761 H-loop/switch region; other site 546269003762 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 546269003763 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 546269003764 Walker A/P-loop; other site 546269003765 ATP binding site [chemical binding]; other site 546269003766 Q-loop/lid; other site 546269003767 ABC transporter signature motif; other site 546269003768 Walker B; other site 546269003769 D-loop; other site 546269003770 H-loop/switch region; other site 546269003771 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 546269003772 active site 546269003773 homodimer interface [polypeptide binding]; other site 546269003774 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 546269003775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269003776 NAD(P) binding site [chemical binding]; other site 546269003777 active site 546269003778 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 546269003779 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546269003780 Helix-turn-helix domains; Region: HTH; cl00088 546269003781 Integrase core domain; Region: rve; cl01316 546269003782 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 546269003783 putative active site [active] 546269003784 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 546269003785 MatE; Region: MatE; cl10513 546269003786 MatE; Region: MatE; cl10513 546269003787 Leucine carboxyl methyltransferase; Region: LCM; cl01306 546269003788 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 546269003789 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 546269003790 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 546269003791 B3/4 domain; Region: B3_4; cl11458 546269003792 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 546269003793 ATP cone domain; Region: ATP-cone; pfam03477 546269003794 Class III ribonucleotide reductase; Region: RNR_III; cd01675 546269003795 effector binding site; other site 546269003796 active site 546269003797 Zn binding site [ion binding]; other site 546269003798 glycine loop; other site 546269003799 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 546269003800 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 546269003801 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 546269003802 Cache domain; Region: Cache_1; pfam02743 546269003803 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 546269003804 Histidine kinase; Region: His_kinase; pfam06580 546269003805 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 546269003806 ATP binding site [chemical binding]; other site 546269003807 Mg2+ binding site [ion binding]; other site 546269003808 G-X-G motif; other site 546269003809 Response regulator receiver domain; Region: Response_reg; pfam00072 546269003810 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 546269003811 active site 546269003812 phosphorylation site [posttranslational modification] 546269003813 intermolecular recognition site; other site 546269003814 dimerization interface [polypeptide binding]; other site 546269003815 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 546269003816 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 546269003817 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 546269003818 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 546269003819 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 546269003820 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 546269003821 catalytic residues [active] 546269003822 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 546269003823 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 546269003824 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 546269003825 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 546269003826 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 546269003827 TM1410 hypothetical-related protein; Region: DUF297; cl00997 546269003828 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 546269003829 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 546269003830 TPP-binding site; other site 546269003831 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 546269003832 PYR/PP interface [polypeptide binding]; other site 546269003833 dimer interface [polypeptide binding]; other site 546269003834 TPP binding site [chemical binding]; other site 546269003835 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 546269003836 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 546269003837 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 546269003838 active site 546269003839 Zn binding site [ion binding]; other site 546269003840 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 546269003841 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 546269003842 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 546269003843 dimer interface [polypeptide binding]; other site 546269003844 active site 546269003845 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 546269003846 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 546269003847 NAD(P) binding site [chemical binding]; other site 546269003848 homotetramer interface [polypeptide binding]; other site 546269003849 homodimer interface [polypeptide binding]; other site 546269003850 active site 546269003851 Acyl transferase domain; Region: Acyl_transf_1; cl08282 546269003852 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 546269003853 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 546269003854 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 546269003855 FMN binding site [chemical binding]; other site 546269003856 substrate binding site [chemical binding]; other site 546269003857 putative catalytic residue [active] 546269003858 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 546269003859 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 546269003860 FMN binding site [chemical binding]; other site 546269003861 substrate binding site [chemical binding]; other site 546269003862 putative catalytic residue [active] 546269003863 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 546269003864 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 546269003865 dimer interface [polypeptide binding]; other site 546269003866 active site 546269003867 CoA binding pocket [chemical binding]; other site 546269003868 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 546269003869 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 546269003870 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 546269003871 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 546269003872 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 546269003873 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 546269003874 ATP-grasp domain; Region: ATP-grasp_4; cl03087 546269003875 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 546269003876 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 546269003877 Sulfatase; Region: Sulfatase; cl10460 546269003878 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 546269003879 carboxyltransferase (CT) interaction site; other site 546269003880 biotinylation site [posttranslational modification]; other site 546269003881 Phosphopantetheine attachment site; Region: PP-binding; cl09936 546269003882 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 546269003883 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 546269003884 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 546269003885 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 546269003886 homodimer interface [polypeptide binding]; other site 546269003887 NAD binding pocket [chemical binding]; other site 546269003888 ATP binding pocket [chemical binding]; other site 546269003889 Mg binding site [ion binding]; other site 546269003890 active-site loop [active] 546269003891 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 546269003892 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 546269003893 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 546269003894 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 546269003895 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 546269003896 HflX GTPase family; Region: HflX; cd01878 546269003897 G1 box; other site 546269003898 GTP/Mg2+ binding site [chemical binding]; other site 546269003899 Switch I region; other site 546269003900 G2 box; other site 546269003901 G3 box; other site 546269003902 Switch II region; other site 546269003903 G4 box; other site 546269003904 G5 box; other site 546269003905 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 546269003906 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 546269003907 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 546269003908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269003909 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 546269003910 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 546269003911 DctM-like transporters; Region: DctM; pfam06808 546269003912 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 546269003913 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 546269003914 aspartate aminotransferase; Provisional; Region: PRK07568 546269003915 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 546269003916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546269003917 homodimer interface [polypeptide binding]; other site 546269003918 catalytic residue [active] 546269003919 Transcriptional regulators [Transcription]; Region: GntR; COG1802 546269003920 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 546269003921 DNA-binding site [nucleotide binding]; DNA binding site 546269003922 FCD domain; Region: FCD; cl11656 546269003923 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546269003924 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 546269003925 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 546269003926 minor groove reading motif; other site 546269003927 helix-hairpin-helix signature motif; other site 546269003928 substrate binding pocket [chemical binding]; other site 546269003929 active site 546269003930 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 546269003931 DNA binding and oxoG recognition site [nucleotide binding] 546269003932 LemA family; Region: LemA; cl00742 546269003933 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 546269003934 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 546269003935 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 546269003936 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 546269003937 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 546269003938 ScpA/B protein; Region: ScpA_ScpB; cl00598 546269003939 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 546269003940 active site 546269003941 putative substrate binding region [chemical binding]; other site 546269003942 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 546269003943 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546269003944 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 546269003945 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 546269003946 metal binding site 2 [ion binding]; metal-binding site 546269003947 putative DNA binding helix; other site 546269003948 metal binding site 1 [ion binding]; metal-binding site 546269003949 dimer interface [polypeptide binding]; other site 546269003950 structural Zn2+ binding site [ion binding]; other site 546269003951 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 546269003952 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 546269003953 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 546269003954 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 546269003955 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546269003956 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 546269003957 putative deacylase active site [active] 546269003958 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 546269003959 Helix-turn-helix domains; Region: HTH; cl00088 546269003960 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 546269003961 non-specific DNA binding site [nucleotide binding]; other site 546269003962 salt bridge; other site 546269003963 sequence-specific DNA binding site [nucleotide binding]; other site 546269003964 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 546269003965 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 546269003966 Predicted ATPase [General function prediction only]; Region: COG3910 546269003967 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003968 Walker A/P-loop; other site 546269003969 ATP binding site [chemical binding]; other site 546269003970 Q-loop/lid; other site 546269003971 ABC transporter signature motif; other site 546269003972 Walker B; other site 546269003973 D-loop; other site 546269003974 H-loop/switch region; other site 546269003975 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 546269003976 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 546269003977 Mg++ binding site [ion binding]; other site 546269003978 putative catalytic motif [active] 546269003979 substrate binding site [chemical binding]; other site 546269003980 exonuclease SbcC; Region: sbcc; TIGR00618 546269003981 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 546269003982 Walker A/P-loop; other site 546269003983 ATP binding site [chemical binding]; other site 546269003984 Q-loop/lid; other site 546269003985 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269003986 Walker B; other site 546269003987 D-loop; other site 546269003988 H-loop/switch region; other site 546269003989 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 546269003990 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 546269003991 active site 546269003992 metal binding site [ion binding]; metal-binding site 546269003993 DNA binding site [nucleotide binding] 546269003994 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 546269003995 histidyl-tRNA synthetase; Region: hisS; TIGR00442 546269003996 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 546269003997 dimer interface [polypeptide binding]; other site 546269003998 motif 1; other site 546269003999 active site 546269004000 motif 2; other site 546269004001 motif 3; other site 546269004002 Uncharacterized conserved protein [Function unknown]; Region: COG1284 546269004003 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 546269004004 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 546269004005 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 546269004006 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 546269004007 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 546269004008 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 546269004009 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269004010 nucleotide binding region [chemical binding]; other site 546269004011 peptide chain release factor 2; Validated; Region: prfB; PRK00578 546269004012 RF-1 domain; Region: RF-1; cl02875 546269004013 RF-1 domain; Region: RF-1; cl02875 546269004014 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 546269004015 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 546269004016 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 546269004017 Uncharacterized conserved protein [Function unknown]; Region: COG1284 546269004018 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 546269004019 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 546269004020 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 546269004021 glycyl-tRNA synthetase; Provisional; Region: PRK04173 546269004022 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 546269004023 motif 1; other site 546269004024 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 546269004025 active site 546269004026 motif 2; other site 546269004027 motif 3; other site 546269004028 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 546269004029 anticodon binding site; other site 546269004030 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 546269004031 Peptidase family C69; Region: Peptidase_C69; pfam03577 546269004032 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 546269004033 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 546269004034 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 546269004035 dimer interface [polypeptide binding]; other site 546269004036 phosphorylation site [posttranslational modification] 546269004037 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 546269004038 ATP binding site [chemical binding]; other site 546269004039 Mg2+ binding site [ion binding]; other site 546269004040 G-X-G motif; other site 546269004041 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 546269004042 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 546269004043 active site 546269004044 phosphorylation site [posttranslational modification] 546269004045 intermolecular recognition site; other site 546269004046 dimerization interface [polypeptide binding]; other site 546269004047 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 546269004048 DNA binding site [nucleotide binding] 546269004049 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 546269004050 active site 546269004051 metal binding site [ion binding]; metal-binding site 546269004052 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 546269004053 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 546269004054 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 546269004055 putative active site [active] 546269004056 substrate binding site [chemical binding]; other site 546269004057 putative cosubstrate binding site; other site 546269004058 catalytic site [active] 546269004059 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 546269004060 substrate binding site [chemical binding]; other site 546269004061 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 546269004062 active site 546269004063 catalytic residues [active] 546269004064 metal binding site [ion binding]; metal-binding site 546269004065 primosome assembly protein PriA; Validated; Region: PRK05580 546269004066 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 546269004067 ATP binding site [chemical binding]; other site 546269004068 putative Mg++ binding site [ion binding]; other site 546269004069 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 546269004070 nucleotide binding region [chemical binding]; other site 546269004071 ATP-binding site [chemical binding]; other site 546269004072 OpgC protein; Region: OpgC_C; cl00792 546269004073 Acyltransferase family; Region: Acyl_transf_3; pfam01757 546269004074 Collagen binding domain; Region: Collagen_bind; pfam05737 546269004075 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 546269004076 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 546269004077 domain interaction interfaces; other site 546269004078 putative Ca2+ binding sites [ion binding]; other site 546269004079 putative ligand binding motif; other site 546269004080 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 546269004081 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 546269004082 ligand binding site [chemical binding]; other site 546269004083 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 546269004084 intersubunit interface [polypeptide binding]; other site 546269004085 active site 546269004086 catalytic residue [active] 546269004087 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 546269004088 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 546269004089 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 546269004090 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 546269004091 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 546269004092 TM-ABC transporter signature motif; other site 546269004093 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 546269004094 TM-ABC transporter signature motif; other site 546269004095 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 546269004096 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 546269004097 Walker A/P-loop; other site 546269004098 ATP binding site [chemical binding]; other site 546269004099 Q-loop/lid; other site 546269004100 ABC transporter signature motif; other site 546269004101 Walker B; other site 546269004102 D-loop; other site 546269004103 H-loop/switch region; other site 546269004104 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 546269004105 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 546269004106 active site 546269004107 catalytic motif [active] 546269004108 Zn binding site [ion binding]; other site 546269004109 Putative cyclase; Region: Cyclase; cl00814 546269004110 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 546269004111 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 546269004112 NAD(P) binding site [chemical binding]; other site 546269004113 catalytic residues [active] 546269004114 dUTPase; Provisional; Region: PHA03129 546269004115 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 546269004116 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 546269004117 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 546269004118 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 546269004119 ATP binding site [chemical binding]; other site 546269004120 putative Mg++ binding site [ion binding]; other site 546269004121 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 546269004122 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 546269004123 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 546269004124 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 546269004125 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 546269004126 HsdM N-terminal domain; Region: HsdM_N; pfam12161 546269004127 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 546269004128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269004129 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 546269004130 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 546269004131 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 546269004132 Walker A/P-loop; other site 546269004133 ATP binding site [chemical binding]; other site 546269004134 Q-loop/lid; other site 546269004135 ABC transporter signature motif; other site 546269004136 Walker B; other site 546269004137 D-loop; other site 546269004138 H-loop/switch region; other site 546269004139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 546269004140 Helix-turn-helix domains; Region: HTH; cl00088 546269004141 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 546269004142 non-specific DNA binding site [nucleotide binding]; other site 546269004143 salt bridge; other site 546269004144 sequence-specific DNA binding site [nucleotide binding]; other site 546269004145 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546269004146 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 546269004147 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 546269004148 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 546269004149 HsdM N-terminal domain; Region: HsdM_N; pfam12161 546269004150 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 546269004151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269004152 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 546269004153 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 546269004154 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 546269004155 ATP binding site [chemical binding]; other site 546269004156 putative Mg++ binding site [ion binding]; other site 546269004157 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 546269004158 nucleotide binding region [chemical binding]; other site 546269004159 ATP-binding site [chemical binding]; other site 546269004160 Cation efflux family; Region: Cation_efflux; cl00316 546269004161 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 546269004162 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 546269004163 non-specific DNA binding site [nucleotide binding]; other site 546269004164 salt bridge; other site 546269004165 sequence-specific DNA binding site [nucleotide binding]; other site 546269004166 GMP synthase; Reviewed; Region: guaA; PRK00074 546269004167 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 546269004168 AMP/PPi binding site [chemical binding]; other site 546269004169 candidate oxyanion hole; other site 546269004170 catalytic triad [active] 546269004171 potential glutamine specificity residues [chemical binding]; other site 546269004172 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 546269004173 ATP Binding subdomain [chemical binding]; other site 546269004174 Ligand Binding sites [chemical binding]; other site 546269004175 Dimerization subdomain; other site 546269004176 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 546269004177 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 546269004178 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 key...; Region: CBS_pair_IMPDH; cd04601 546269004179 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 546269004180 active site 546269004181 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 546269004182 Glutaminase; Region: Glutaminase; cl00907 546269004183 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 546269004184 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 546269004185 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 546269004186 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 546269004187 RNA binding surface [nucleotide binding]; other site 546269004188 YGGT family; Region: YGGT; cl00508 546269004189 Protein of unknown function (DUF552); Region: DUF552; cl00775 546269004190 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 546269004191 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 546269004192 catalytic residue [active] 546269004193 HlyD family secretion protein; Region: HlyD_2; pfam12700 546269004194 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 546269004195 RNA polymerase factor sigma-70; Validated; Region: PRK08295 546269004196 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 546269004197 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 546269004198 YacP-like NYN domain; Region: NYN_YacP; cl01491 546269004199 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 546269004200 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 546269004201 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 546269004202 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 546269004203 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 546269004204 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 546269004205 ArsC family; Region: ArsC; pfam03960 546269004206 putative ArsC-like catalytic residues; other site 546269004207 putative TRX-like catalytic residues [active] 546269004208 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 546269004209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269004210 Transposase IS200 like; Region: Y1_Tnp; cl00848 546269004211 4Fe-4S binding domain; Region: Fer4_5; pfam12801 546269004212 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 546269004213 4Fe-4S binding domain; Region: Fer4; cl02805 546269004214 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 546269004215 catalytic residues [active] 546269004216 CAAX protease self-immunity; Region: Abi; cl00558 546269004217 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 546269004218 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 546269004219 active site 546269004220 phosphorylation site [posttranslational modification] 546269004221 intermolecular recognition site; other site 546269004222 dimerization interface [polypeptide binding]; other site 546269004223 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 546269004224 DNA binding site [nucleotide binding] 546269004225 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 546269004226 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 546269004227 dimer interface [polypeptide binding]; other site 546269004228 phosphorylation site [posttranslational modification] 546269004229 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 546269004230 ATP binding site [chemical binding]; other site 546269004231 Mg2+ binding site [ion binding]; other site 546269004232 G-X-G motif; other site 546269004233 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 546269004234 elongation factor G; Reviewed; Region: PRK12740 546269004235 G1 box; other site 546269004236 putative GEF interaction site [polypeptide binding]; other site 546269004237 GTP/Mg2+ binding site [chemical binding]; other site 546269004238 G3 box; other site 546269004239 Switch II region; other site 546269004240 G4 box; other site 546269004241 G5 box; other site 546269004242 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 546269004243 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 546269004244 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 546269004245 hypothetical protein; Provisional; Region: PRK07329 546269004246 Transposase IS200 like; Region: Y1_Tnp; cl00848 546269004247 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 546269004248 S-layer homology domain; Region: SLH; pfam00395 546269004249 S-layer homology domain; Region: SLH; pfam00395 546269004250 S-layer homology domain; Region: SLH; pfam00395 546269004251 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 546269004252 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 546269004253 active site 546269004254 phosphorylation site [posttranslational modification] 546269004255 intermolecular recognition site; other site 546269004256 dimerization interface [polypeptide binding]; other site 546269004257 LytTr DNA-binding domain; Region: LytTR; cl04498 546269004258 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 546269004259 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 546269004260 ATP binding site [chemical binding]; other site 546269004261 Mg2+ binding site [ion binding]; other site 546269004262 G-X-G motif; other site 546269004263 HIRAN domain; Region: HIRAN; cl07418 546269004264 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 546269004265 MatE; Region: MatE; cl10513 546269004266 MatE; Region: MatE; cl10513 546269004267 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 546269004268 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 546269004269 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 546269004270 Walker A/P-loop; other site 546269004271 ATP binding site [chemical binding]; other site 546269004272 Q-loop/lid; other site 546269004273 ABC transporter signature motif; other site 546269004274 Walker B; other site 546269004275 D-loop; other site 546269004276 H-loop/switch region; other site 546269004277 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The...; Region: ABC_cobalt_CbiO_domain2; cd03226 546269004278 Walker A/P-loop; other site 546269004279 ATP binding site [chemical binding]; other site 546269004280 Q-loop/lid; other site 546269004281 ABC transporter signature motif; other site 546269004282 Walker B; other site 546269004283 D-loop; other site 546269004284 H-loop/switch region; other site 546269004285 Cobalt transport protein; Region: CbiQ; cl00463 546269004286 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 546269004287 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 546269004288 Helix-turn-helix domains; Region: HTH; cl00088 546269004289 Predicted transcriptional regulator [Transcription]; Region: COG2378 546269004290 WYL domain; Region: WYL; cl14852 546269004291 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 546269004292 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 546269004293 trimerization site [polypeptide binding]; other site 546269004294 active site 546269004295 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 546269004296 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 546269004297 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546269004298 catalytic residue [active] 546269004299 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 546269004300 FeS assembly ATPase SufC; Region: sufC; TIGR01978 546269004301 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 546269004302 Walker A/P-loop; other site 546269004303 ATP binding site [chemical binding]; other site 546269004304 Q-loop/lid; other site 546269004305 ABC transporter signature motif; other site 546269004306 Walker B; other site 546269004307 D-loop; other site 546269004308 H-loop/switch region; other site 546269004309 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 546269004310 putative active site [active] 546269004311 catalytic triad [active] 546269004312 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 546269004313 PA/protease or protease-like domain interface [polypeptide binding]; other site 546269004314 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 546269004315 catalytic residues [active] 546269004316 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 546269004317 S-layer homology domain; Region: SLH; pfam00395 546269004318 S-layer homology domain; Region: SLH; pfam00395 546269004319 S-layer homology domain; Region: SLH; pfam00395 546269004320 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 546269004321 classical (c) SDRs; Region: SDR_c; cd05233 546269004322 NAD(P) binding site [chemical binding]; other site 546269004323 active site 546269004324 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 546269004325 folate binding site [chemical binding]; other site 546269004326 NADP+ binding site [chemical binding]; other site 546269004327 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 546269004328 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 546269004329 dimerization interface [polypeptide binding]; other site 546269004330 active site 546269004331 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 546269004332 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 546269004333 motif II; other site 546269004334 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 546269004335 Mechanosensitive ion channel; Region: MS_channel; pfam00924 546269004336 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 546269004337 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 546269004338 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 546269004339 RNA binding surface [nucleotide binding]; other site 546269004340 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 546269004341 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 546269004342 TPP-binding site [chemical binding]; other site 546269004343 dimer interface [polypeptide binding]; other site 546269004344 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 546269004345 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 546269004346 PYR/PP interface [polypeptide binding]; other site 546269004347 dimer interface [polypeptide binding]; other site 546269004348 TPP binding site [chemical binding]; other site 546269004349 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 546269004350 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 546269004351 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 546269004352 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 546269004353 active site 546269004354 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 546269004355 substrate binding site [chemical binding]; other site 546269004356 metal binding site [ion binding]; metal-binding site 546269004357 HEAT repeats; Region: HEAT_2; pfam13646 546269004358 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 546269004359 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 546269004360 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 546269004361 putative Ca2+ binding sites [ion binding]; other site 546269004362 domain interaction interfaces; other site 546269004363 putative ligand binding motif; other site 546269004364 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 546269004365 Collagen binding domain; Region: Collagen_bind; pfam05737 546269004366 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 546269004367 putative Ca2+ binding sites [ion binding]; other site 546269004368 domain interaction interfaces; other site 546269004369 putative ligand binding motif; other site 546269004370 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 546269004371 putative Ca2+ binding sites [ion binding]; other site 546269004372 domain interaction interfaces; other site 546269004373 putative ligand binding motif; other site 546269004374 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 546269004375 TfoX N-terminal domain; Region: TfoX_N; cl01167 546269004376 Protein of unknown function (DUF2185); Region: DUF2185; cl02019 546269004377 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; cl01757 546269004378 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 546269004379 30S subunit binding site; other site 546269004380 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 546269004381 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 546269004382 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 546269004383 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 546269004384 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 546269004385 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 546269004386 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 546269004387 ring oligomerisation interface [polypeptide binding]; other site 546269004388 ATP/Mg binding site [chemical binding]; other site 546269004389 stacking interactions; other site 546269004390 hinge regions; other site 546269004391 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 546269004392 oligomerisation interface [polypeptide binding]; other site 546269004393 mobile loop; other site 546269004394 roof hairpin; other site 546269004395 ATP synthase subunit D; Region: ATP-synt_D; cl00613 546269004396 V-type ATP synthase subunit B; Provisional; Region: PRK04196 546269004397 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 546269004398 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 546269004399 Walker A motif homologous position; other site 546269004400 Walker B motif; other site 546269004401 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 546269004402 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 546269004403 V-type ATP synthase subunit A; Provisional; Region: PRK04192 546269004404 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 546269004405 Walker A motif/ATP binding site; other site 546269004406 Walker B motif; other site 546269004407 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 546269004408 Plant ATP synthase F0; Region: YMF19; cl07975 546269004409 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 546269004410 V-type ATP synthase subunit I; Validated; Region: PRK05771 546269004411 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 546269004412 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 546269004413 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 546269004414 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 546269004415 SelR domain; Region: SelR; pfam01641 546269004416 DHHW protein; Region: DHHW; pfam14286 546269004417 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 546269004418 HI0933-like protein; Region: HI0933_like; pfam03486 546269004419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269004420 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 546269004421 FMN-binding domain; Region: FMN_bind; cl01081 546269004422 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 546269004423 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 546269004424 Walker A/P-loop; other site 546269004425 ATP binding site [chemical binding]; other site 546269004426 Q-loop/lid; other site 546269004427 ABC transporter signature motif; other site 546269004428 Walker B; other site 546269004429 D-loop; other site 546269004430 H-loop/switch region; other site 546269004431 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546269004432 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 546269004433 FtsX-like permease family; Region: FtsX; cl15850 546269004434 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546269004435 FtsX-like permease family; Region: FtsX; cl15850 546269004436 Predicted membrane protein [Function unknown]; Region: COG4393 546269004437 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 546269004438 Fe2+ transport protein; Region: Iron_transport; cl01377 546269004439 Iron permease FTR1 family; Region: FTR1; cl00475 546269004440 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546269004441 FtsX-like permease family; Region: FtsX; cl15850 546269004442 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 546269004443 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 546269004444 Walker A/P-loop; other site 546269004445 ATP binding site [chemical binding]; other site 546269004446 Q-loop/lid; other site 546269004447 ABC transporter signature motif; other site 546269004448 Walker B; other site 546269004449 D-loop; other site 546269004450 H-loop/switch region; other site 546269004451 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 546269004452 NMT1-like family; Region: NMT1_2; cl15260 546269004453 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 546269004454 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 546269004455 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 546269004456 dimer interface [polypeptide binding]; other site 546269004457 conserved gate region; other site 546269004458 putative PBP binding loops; other site 546269004459 ABC-ATPase subunit interface; other site 546269004460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269004461 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 546269004462 Walker A/P-loop; other site 546269004463 ATP binding site [chemical binding]; other site 546269004464 Q-loop/lid; other site 546269004465 ABC transporter signature motif; other site 546269004466 Walker B; other site 546269004467 D-loop; other site 546269004468 H-loop/switch region; other site 546269004469 Helix-turn-helix domains; Region: HTH; cl00088 546269004470 3H domain; Region: 3H; pfam02829 546269004471 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 546269004472 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 546269004473 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 546269004474 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 546269004475 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 546269004476 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 546269004477 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 546269004478 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 546269004479 dimerization domain swap beta strand [polypeptide binding]; other site 546269004480 regulatory protein interface [polypeptide binding]; other site 546269004481 active site 546269004482 regulatory phosphorylation site [posttranslational modification]; other site 546269004483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 546269004484 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 546269004485 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 546269004486 active site 546269004487 Ap6A binding site [chemical binding]; other site 546269004488 nudix motif; other site 546269004489 metal binding site [ion binding]; metal-binding site 546269004490 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 546269004491 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 546269004492 putative substrate binding pocket [chemical binding]; other site 546269004493 dimer interface [polypeptide binding]; other site 546269004494 phosphate binding site [ion binding]; other site 546269004495 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 546269004496 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 546269004497 putative hydrolase; Validated; Region: PRK09248 546269004498 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 546269004499 FAD binding domain; Region: FAD_binding_4; pfam01565 546269004500 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 546269004501 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 546269004502 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 546269004503 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 546269004504 PPIC-type PPIASE domain; Region: Rotamase; cl08278 546269004505 SLBB domain; Region: SLBB; pfam10531 546269004506 comEA protein; Region: comE; TIGR01259 546269004507 Tetratricopeptide repeat; Region: TPR_12; pfam13424 546269004508 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 546269004509 Protein of unknown function (DUF4026); Region: DUF4026; pfam13218 546269004510 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 546269004511 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 546269004512 Ribonuclease P; Region: Ribonuclease_P; cl00457 546269004513 Haemolytic domain; Region: Haemolytic; cl00506 546269004514 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 546269004515 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 546269004516 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 546269004517 G-X-X-G motif; other site 546269004518 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 546269004519 RxxxH motif; other site 546269004520 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 546269004521 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 546269004522 DNA binding site [nucleotide binding] 546269004523 active site 546269004524 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 546269004525 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 546269004526 trmE is a tRNA modification GTPase; Region: trmE; cd04164 546269004527 G1 box; other site 546269004528 GTP/Mg2+ binding site [chemical binding]; other site 546269004529 Switch I region; other site 546269004530 G2 box; other site 546269004531 Switch II region; other site 546269004532 G3 box; other site 546269004533 G4 box; other site 546269004534 G5 box; other site 546269004535 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 546269004536 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 546269004537 putative efflux protein, MATE family; Region: matE; TIGR00797 546269004538 MatE; Region: MatE; cl10513 546269004539 MatE; Region: MatE; cl10513 546269004540 Predicted membrane protein [Function unknown]; Region: COG4684 546269004541 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 546269004542 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 546269004543 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 546269004544 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 546269004545 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 546269004546 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 546269004547 dimer interface [polypeptide binding]; other site 546269004548 ssDNA binding site [nucleotide binding]; other site 546269004549 tetramer (dimer of dimers) interface [polypeptide binding]; other site 546269004550 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 546269004551 PspC domain; Region: PspC; cl00864 546269004552 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 546269004553 catalytic residues [active] 546269004554 dimer interface [polypeptide binding]; other site 546269004555 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 546269004556 Transcriptional regulator [Transcription]; Region: IclR; COG1414 546269004557 Helix-turn-helix domains; Region: HTH; cl00088 546269004558 Bacterial transcriptional regulator; Region: IclR; pfam01614 546269004559 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 546269004560 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 546269004561 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 546269004562 glutaminase active site [active] 546269004563 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 546269004564 dimer interface [polypeptide binding]; other site 546269004565 active site 546269004566 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 546269004567 dimer interface [polypeptide binding]; other site 546269004568 active site 546269004569 RloB-like protein; Region: RloB; pfam13707 546269004570 RloB-like protein; Region: RloB; pfam13707 546269004571 Predicted ATPases [General function prediction only]; Region: COG1106 546269004572 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269004573 Walker B; other site 546269004574 D-loop; other site 546269004575 H-loop/switch region; other site 546269004576 Protein of unknown function (DUF419); Region: DUF419; cl15265 546269004577 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546269004578 Transcriptional regulators [Transcription]; Region: MarR; COG1846 546269004579 Helix-turn-helix domains; Region: HTH; cl00088 546269004580 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 546269004581 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 546269004582 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 546269004583 active site 546269004584 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 546269004585 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 546269004586 Cation transport protein; Region: TrkH; cl10514 546269004587 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 546269004588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269004589 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 546269004590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269004591 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 546269004592 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 546269004593 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 546269004594 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 546269004595 active site 546269004596 DNA binding site [nucleotide binding] 546269004597 putative phosphate binding site [ion binding]; other site 546269004598 putative catalytic site [active] 546269004599 metal binding site A [ion binding]; metal-binding site 546269004600 AP binding site [nucleotide binding]; other site 546269004601 metal binding site B [ion binding]; metal-binding site 546269004602 ParB-like nuclease domain; Region: ParBc; cl02129 546269004603 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 546269004604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269004605 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 546269004606 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 546269004607 Magnesium ion binding site [ion binding]; other site 546269004608 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 546269004609 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 546269004610 active site 546269004611 phosphorylation site [posttranslational modification] 546269004612 intermolecular recognition site; other site 546269004613 dimerization interface [polypeptide binding]; other site 546269004614 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 546269004615 DNA binding site [nucleotide binding] 546269004616 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 546269004617 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 546269004618 dimerization interface [polypeptide binding]; other site 546269004619 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 546269004620 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 546269004621 dimer interface [polypeptide binding]; other site 546269004622 phosphorylation site [posttranslational modification] 546269004623 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 546269004624 ATP binding site [chemical binding]; other site 546269004625 Mg2+ binding site [ion binding]; other site 546269004626 G-X-G motif; other site 546269004627 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 546269004628 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 546269004629 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 546269004630 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 546269004631 active site 546269004632 dimer interface [polypeptide binding]; other site 546269004633 motif 1; other site 546269004634 motif 2; other site 546269004635 motif 3; other site 546269004636 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 546269004637 anticodon binding site; other site 546269004638 Rubrerythrin [Energy production and conversion]; Region: COG1592 546269004639 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 546269004640 binuclear metal center [ion binding]; other site 546269004641 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 546269004642 iron binding site [ion binding]; other site 546269004643 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 546269004644 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 546269004645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269004646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546269004647 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 546269004648 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 546269004649 ParB-like partition proteins; Region: parB_part; TIGR00180 546269004650 ParB-like nuclease domain; Region: ParBc; cl02129 546269004651 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 546269004652 active site residue [active] 546269004653 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 546269004654 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 546269004655 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 546269004656 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; cl00125 546269004657 active site residue [active] 546269004658 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; cl00436 546269004659 CPxP motif; other site 546269004660 DsrE/DsrF-like family; Region: DrsE; cl00672 546269004661 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 546269004662 dimerization interface [polypeptide binding]; other site 546269004663 putative DNA binding site [nucleotide binding]; other site 546269004664 putative Zn2+ binding site [ion binding]; other site 546269004665 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 546269004666 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 546269004667 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 546269004668 putative active site pocket [active] 546269004669 cleavage site 546269004670 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942