-- dump date 20120504_143656 -- class Genbank::misc_feature -- table misc_feature_note -- id note 502558000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 502558000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 502558000003 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 502558000004 Walker A motif; other site 502558000005 ATP binding site [chemical binding]; other site 502558000006 Walker B motif; other site 502558000007 arginine finger; other site 502558000008 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 502558000009 DnaA box-binding interface [nucleotide binding]; other site 502558000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 502558000011 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 502558000012 putative DNA binding surface [nucleotide binding]; other site 502558000013 dimer interface [polypeptide binding]; other site 502558000014 beta-clamp/clamp loader binding surface; other site 502558000015 beta-clamp/translesion DNA polymerase binding surface; other site 502558000016 recombination protein F; Reviewed; Region: recF; PRK00064 502558000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000018 Walker A/P-loop; other site 502558000019 ATP binding site [chemical binding]; other site 502558000020 Q-loop/lid; other site 502558000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000022 ABC transporter signature motif; other site 502558000023 Walker B; other site 502558000024 D-loop; other site 502558000025 H-loop/switch region; other site 502558000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 502558000027 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 502558000028 Mg2+ binding site [ion binding]; other site 502558000029 G-X-G motif; other site 502558000030 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 502558000031 anchoring element; other site 502558000032 dimer interface [polypeptide binding]; other site 502558000033 ATP binding site [chemical binding]; other site 502558000034 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 502558000035 active site 502558000036 putative metal-binding site [ion binding]; other site 502558000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 502558000038 DNA gyrase subunit A; Validated; Region: PRK05560 502558000039 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 502558000040 CAP-like domain; other site 502558000041 active site 502558000042 primary dimer interface [polypeptide binding]; other site 502558000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 502558000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 502558000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 502558000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 502558000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 502558000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 502558000049 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 502558000050 MatE; Region: MatE; cl10513 502558000051 MatE; Region: MatE; cl10513 502558000052 Bifunctional nuclease; Region: DNase-RNase; cl00553 502558000053 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 502558000054 Helix-turn-helix domains; Region: HTH; cl00088 502558000055 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; cd05466 502558000056 dimerization interface [polypeptide binding]; other site 502558000057 ribonuclease E; Reviewed; Region: rne; PRK10811 502558000058 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000059 Putative viral replication protein; Region: Viral_Rep; pfam02407 502558000060 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000061 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 502558000062 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 502558000063 catalytic residues [active] 502558000064 catalytic nucleophile [active] 502558000065 Recombinase; Region: Recombinase; pfam07508 502558000066 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 502558000067 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 502558000068 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 502558000069 catalytic residues [active] 502558000070 catalytic nucleophile [active] 502558000071 Recombinase; Region: Recombinase; pfam07508 502558000072 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 502558000073 PemK-like protein; Region: PemK; cl00995 502558000074 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 502558000075 Transposase; Region: DEDD_Tnp_IS110; pfam01548 502558000076 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 502558000077 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 502558000078 AMP-binding enzyme; Region: AMP-binding; cl15778 502558000079 AMP-binding enzyme; Region: AMP-binding; cl15778 502558000080 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 502558000081 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 502558000082 Cobalt transport protein; Region: CbiQ; cl00463 502558000083 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 502558000084 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 502558000085 Walker A/P-loop; other site 502558000086 ATP binding site [chemical binding]; other site 502558000087 Q-loop/lid; other site 502558000088 ABC transporter signature motif; other site 502558000089 Walker B; other site 502558000090 D-loop; other site 502558000091 H-loop/switch region; other site 502558000092 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 502558000093 Walker A/P-loop; other site 502558000094 ATP binding site [chemical binding]; other site 502558000095 Q-loop/lid; other site 502558000096 ABC transporter signature motif; other site 502558000097 Walker B; other site 502558000098 D-loop; other site 502558000099 H-loop/switch region; other site 502558000100 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 502558000101 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558000102 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558000103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000104 Walker A/P-loop; other site 502558000105 ATP binding site [chemical binding]; other site 502558000106 Q-loop/lid; other site 502558000107 ABC transporter signature motif; other site 502558000108 Walker B; other site 502558000109 D-loop; other site 502558000110 H-loop/switch region; other site 502558000111 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558000112 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558000113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000114 Walker A/P-loop; other site 502558000115 ATP binding site [chemical binding]; other site 502558000116 Q-loop/lid; other site 502558000117 ABC transporter signature motif; other site 502558000118 Walker B; other site 502558000119 D-loop; other site 502558000120 H-loop/switch region; other site 502558000121 Nonribosomal peptide synthase; Region: NRPS; pfam08415 502558000122 peptide synthase; Provisional; Region: PRK12316 502558000123 AMP-binding enzyme; Region: AMP-binding; cl15778 502558000124 Phosphopantetheine attachment site; Region: PP-binding; cl09936 502558000125 peptide synthase; Provisional; Region: PRK12467 502558000126 Nonribosomal peptide synthase; Region: NRPS; pfam08415 502558000127 AMP-binding enzyme; Region: AMP-binding; cl15778 502558000128 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 502558000129 Phosphopantetheine attachment site; Region: PP-binding; cl09936 502558000130 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 502558000131 Nonribosomal peptide synthase; Region: NRPS; pfam08415 502558000132 peptide synthase; Provisional; Region: PRK12467 502558000133 Phosphopantetheine attachment site; Region: PP-binding; cl09936 502558000134 Condensation domain; Region: Condensation; pfam00668 502558000135 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 502558000136 Nonribosomal peptide synthase; Region: NRPS; pfam08415 502558000137 Phosphopantetheine attachment site; Region: PP-binding; cl09936 502558000138 Condensation domain; Region: Condensation; pfam00668 502558000139 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 502558000140 Nonribosomal peptide synthase; Region: NRPS; pfam08415 502558000141 AMP-binding enzyme; Region: AMP-binding; cl15778 502558000142 acyl-CoA synthetase; Validated; Region: PRK08308 502558000143 Methyltransferase domain; Region: Methyltransf_31; pfam13847 502558000144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000145 peptide synthase; Provisional; Region: PRK12467 502558000146 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 502558000147 Phosphopantetheine attachment site; Region: PP-binding; cl09936 502558000148 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 502558000149 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 502558000150 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 502558000151 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 502558000152 putative substrate translocation pore; other site 502558000153 Helix-turn-helix domains; Region: HTH; cl00088 502558000154 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 502558000155 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 502558000156 NlpC/P60 family; Region: NLPC_P60; cl11438 502558000157 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 502558000158 Domain of unknown function DUF87; Region: DUF87; pfam01935 502558000159 AAA-like domain; Region: AAA_10; pfam12846 502558000160 PrgI family protein; Region: PrgI; pfam12666 502558000161 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 502558000162 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000163 Walker A motif; other site 502558000164 ATP binding site [chemical binding]; other site 502558000165 Walker B motif; other site 502558000166 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 502558000167 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 502558000168 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 502558000169 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 502558000170 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 502558000171 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 502558000172 cofactor binding site; other site 502558000173 DNA binding site [nucleotide binding] 502558000174 substrate interaction site [chemical binding]; other site 502558000175 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 502558000176 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 502558000177 cofactor binding site; other site 502558000178 DNA binding site [nucleotide binding] 502558000179 substrate interaction site [chemical binding]; other site 502558000180 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 502558000181 RelB antitoxin; Region: RelB; cl01171 502558000182 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 502558000183 S-adenosylmethionine binding site [chemical binding]; other site 502558000184 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000185 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000186 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000187 NlpC/P60 family; Region: NLPC_P60; cl11438 502558000188 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 502558000189 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 502558000190 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 502558000191 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 502558000192 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 502558000193 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 502558000194 active site 502558000195 catalytic site [active] 502558000196 ParB-like nuclease domain; Region: ParBc; cl02129 502558000197 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 502558000198 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 502558000199 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 502558000200 P-loop; other site 502558000201 Magnesium ion binding site [ion binding]; other site 502558000202 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 502558000203 Magnesium ion binding site [ion binding]; other site 502558000204 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 502558000205 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 502558000206 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 502558000207 domain interaction interfaces; other site 502558000208 putative Ca2+ binding sites [ion binding]; other site 502558000209 putative ligand binding motif; other site 502558000210 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 502558000211 putative Ca2+ binding sites [ion binding]; other site 502558000212 domain interaction interfaces; other site 502558000213 putative ligand binding motif; other site 502558000214 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 502558000215 putative Ca2+ binding sites [ion binding]; other site 502558000216 domain interaction interfaces; other site 502558000217 putative ligand binding motif; other site 502558000218 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 502558000219 putative Ca2+ binding sites [ion binding]; other site 502558000220 domain interaction interfaces; other site 502558000221 putative ligand binding motif; other site 502558000222 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 502558000223 putative Ca2+ binding sites [ion binding]; other site 502558000224 domain interaction interfaces; other site 502558000225 putative ligand binding motif; other site 502558000226 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 502558000227 domain interaction interfaces; other site 502558000228 putative Ca2+ binding sites [ion binding]; other site 502558000229 putative ligand binding motif; other site 502558000230 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 502558000231 putative Ca2+ binding sites [ion binding]; other site 502558000232 domain interaction interfaces; other site 502558000233 putative ligand binding motif; other site 502558000234 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 502558000235 putative Ca2+ binding sites [ion binding]; other site 502558000236 domain interaction interfaces; other site 502558000237 putative ligand binding motif; other site 502558000238 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 502558000239 putative Ca2+ binding sites [ion binding]; other site 502558000240 domain interaction interfaces; other site 502558000241 putative ligand binding motif; other site 502558000242 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 502558000243 HSP70 interaction site [polypeptide binding]; other site 502558000244 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 502558000245 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 502558000246 G1 box; other site 502558000247 putative GEF interaction site [polypeptide binding]; other site 502558000248 GTP/Mg2+ binding site [chemical binding]; other site 502558000249 Switch I region; other site 502558000250 G2 box; other site 502558000251 G3 box; other site 502558000252 Switch II region; other site 502558000253 G4 box; other site 502558000254 G5 box; other site 502558000255 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 502558000256 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 502558000257 SurA N-terminal domain; Region: SurA_N_3; cl07813 502558000258 PPIC-type PPIASE domain; Region: Rotamase; cl08278 502558000259 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 502558000260 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 502558000261 Walker A/P-loop; other site 502558000262 ATP binding site [chemical binding]; other site 502558000263 Q-loop/lid; other site 502558000264 ABC transporter signature motif; other site 502558000265 Walker B; other site 502558000266 D-loop; other site 502558000267 H-loop/switch region; other site 502558000268 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 502558000269 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 502558000270 dimer interface [polypeptide binding]; other site 502558000271 ssDNA binding site [nucleotide binding]; other site 502558000272 tetramer (dimer of dimers) interface [polypeptide binding]; other site 502558000273 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 502558000274 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 502558000275 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 502558000276 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 502558000277 replicative DNA helicase; Region: DnaB; TIGR00665 502558000278 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 502558000279 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 502558000280 Walker A motif; other site 502558000281 ATP binding site [chemical binding]; other site 502558000282 Walker B motif; other site 502558000283 DNA binding loops [nucleotide binding] 502558000284 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 502558000285 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 502558000286 active site 502558000287 metal binding site [ion binding]; metal-binding site 502558000288 DNA binding site [nucleotide binding] 502558000289 Uncharacterized conserved protein [Function unknown]; Region: COG4717 502558000290 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000291 Walker A/P-loop; other site 502558000292 ATP binding site [chemical binding]; other site 502558000293 Uncharacterized conserved protein [Function unknown]; Region: COG4717 502558000294 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 502558000295 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 502558000296 DNA binding residues [nucleotide binding] 502558000297 dimerization interface [polypeptide binding]; other site 502558000298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000299 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558000300 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 502558000301 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 502558000302 GDP-binding site [chemical binding]; other site 502558000303 ACT binding site; other site 502558000304 IMP binding site; other site 502558000305 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 502558000306 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 502558000307 ATP-grasp domain; Region: ATP-grasp_4; cl03087 502558000308 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 502558000309 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 502558000310 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 502558000311 FeS/SAM binding site; other site 502558000312 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 502558000313 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 502558000314 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 502558000315 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 502558000316 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 502558000317 Walker A motif; other site 502558000318 ATP binding site [chemical binding]; other site 502558000319 Walker B motif; other site 502558000320 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 502558000321 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000322 Walker A motif; other site 502558000323 ATP binding site [chemical binding]; other site 502558000324 Walker B motif; other site 502558000325 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 502558000326 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 502558000327 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 502558000328 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 502558000329 Competence protein A; Region: Competence_A; pfam11104 502558000330 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 502558000331 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 502558000332 substrate binding pocket [chemical binding]; other site 502558000333 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 502558000334 membrane-bound complex binding site; other site 502558000335 hinge residues; other site 502558000336 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 502558000337 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 502558000338 substrate binding pocket [chemical binding]; other site 502558000339 membrane-bound complex binding site; other site 502558000340 hinge residues; other site 502558000341 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558000342 metal binding site [ion binding]; metal-binding site 502558000343 active site 502558000344 I-site; other site 502558000345 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 502558000346 putative active site [active] 502558000347 AIR carboxylase; Region: AIRC; cl00310 502558000348 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 502558000349 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 502558000350 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 502558000351 dimer interface [polypeptide binding]; other site 502558000352 PYR/PP interface [polypeptide binding]; other site 502558000353 TPP binding site [chemical binding]; other site 502558000354 substrate binding site [chemical binding]; other site 502558000355 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 502558000356 TPP-binding site; other site 502558000357 4Fe-4S binding domain; Region: Fer4; cl02805 502558000358 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 502558000359 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 502558000360 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 502558000361 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 502558000362 AMP-binding enzyme; Region: AMP-binding; cl15778 502558000363 Sodium:solute symporter family; Region: SSF; cl00456 502558000364 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 502558000365 DNA binding residues [nucleotide binding] 502558000366 dimerization interface [polypeptide binding]; other site 502558000367 hypothetical protein; Validated; Region: PRK07121 502558000368 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 502558000369 putative active site [active] 502558000370 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 502558000371 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 502558000372 Predicted transcriptional regulator [Transcription]; Region: COG1959 502558000373 Helix-turn-helix domains; Region: HTH; cl00088 502558000374 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 502558000375 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 502558000376 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 502558000377 MgtE intracellular N domain; Region: MgtE_N; cl15244 502558000378 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 502558000379 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 502558000380 dipeptidase PepV; Reviewed; Region: PRK07318 502558000381 active site 502558000382 metal binding site [ion binding]; metal-binding site 502558000383 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 502558000384 Rubrerythrin [Energy production and conversion]; Region: COG1592 502558000385 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 502558000386 binuclear metal center [ion binding]; other site 502558000387 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 502558000388 iron binding site [ion binding]; other site 502558000389 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 502558000390 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 502558000391 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 502558000392 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 502558000393 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 502558000394 active site 502558000395 phosphorylation site [posttranslational modification] 502558000396 intermolecular recognition site; other site 502558000397 dimerization interface [polypeptide binding]; other site 502558000398 LytTr DNA-binding domain; Region: LytTR; cl04498 502558000399 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 502558000400 active site 502558000401 dimer interface [polypeptide binding]; other site 502558000402 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 502558000403 Acylphosphatase; Region: Acylphosphatase; cl00551 502558000404 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 502558000405 HypF finger; Region: zf-HYPF; pfam07503 502558000406 HypF finger; Region: zf-HYPF; pfam07503 502558000407 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 502558000408 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 502558000409 HupF/HypC family; Region: HupF_HypC; cl00394 502558000410 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 502558000411 Hydrogenase formation hypA family; Region: HypD; cl12072 502558000412 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 502558000413 Amidinotransferase; Region: Amidinotransf; cl12043 502558000414 Predicted permeases [General function prediction only]; Region: RarD; COG2962 502558000415 EamA-like transporter family; Region: EamA; cl01037 502558000416 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 502558000417 metabolite-proton symporter; Region: 2A0106; TIGR00883 502558000418 putative substrate translocation pore; other site 502558000419 Helix-turn-helix domains; Region: HTH; cl00088 502558000420 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 502558000421 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 502558000422 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 502558000423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558000424 catalytic residue [active] 502558000425 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 502558000426 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 502558000427 potential catalytic triad [active] 502558000428 conserved cys residue [active] 502558000429 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 502558000430 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 502558000431 Walker A/P-loop; other site 502558000432 ATP binding site [chemical binding]; other site 502558000433 Q-loop/lid; other site 502558000434 ABC transporter signature motif; other site 502558000435 Walker B; other site 502558000436 D-loop; other site 502558000437 H-loop/switch region; other site 502558000438 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558000439 Helix-turn-helix domains; Region: HTH; cl00088 502558000440 Phosphopantetheine attachment site; Region: PP-binding; cl09936 502558000441 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 502558000442 30S subunit binding site; other site 502558000443 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 502558000444 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 502558000445 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 502558000446 Substrate binding site; other site 502558000447 Mg++ binding site; other site 502558000448 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 502558000449 active site 502558000450 substrate binding site [chemical binding]; other site 502558000451 CoA binding site [chemical binding]; other site 502558000452 Polysulphide reductase, NrfD; Region: NrfD; cl01295 502558000453 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558000454 4Fe-4S binding domain; Region: Fer4; cl02805 502558000455 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 502558000456 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558000457 molybdopterin cofactor binding site; other site 502558000458 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558000459 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 502558000460 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 502558000461 active site 502558000462 phosphorylation site [posttranslational modification] 502558000463 intermolecular recognition site; other site 502558000464 dimerization interface [polypeptide binding]; other site 502558000465 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 502558000466 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 502558000467 Histidine kinase; Region: His_kinase; pfam06580 502558000468 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 502558000469 ATP binding site [chemical binding]; other site 502558000470 Mg2+ binding site [ion binding]; other site 502558000471 G-X-G motif; other site 502558000472 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 502558000473 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 502558000474 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 502558000475 active site 502558000476 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 502558000477 putative active site [active] 502558000478 catalytic residue [active] 502558000479 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 502558000480 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 502558000481 putative substrate translocation pore; other site 502558000482 CAAX protease self-immunity; Region: Abi; cl00558 502558000483 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 502558000484 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 502558000485 Walker A/P-loop; other site 502558000486 ATP binding site [chemical binding]; other site 502558000487 Q-loop/lid; other site 502558000488 ABC transporter signature motif; other site 502558000489 Walker B; other site 502558000490 D-loop; other site 502558000491 H-loop/switch region; other site 502558000492 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 502558000493 DNA-binding site [nucleotide binding]; DNA binding site 502558000494 Predicted membrane protein [General function prediction only]; Region: COG4194 502558000495 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 502558000496 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 502558000497 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 502558000498 ABC transporter; Region: ABC_tran_2; pfam12848 502558000499 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 502558000500 Cytochrome c552; Region: Cytochrom_C552; pfam02335 502558000501 CcmE; Region: CcmE; cl00994 502558000502 CcmE; Region: CcmE; cl00994 502558000503 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 502558000504 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558000505 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 502558000506 Walker A/P-loop; other site 502558000507 ATP binding site [chemical binding]; other site 502558000508 Q-loop/lid; other site 502558000509 ABC transporter signature motif; other site 502558000510 Walker B; other site 502558000511 D-loop; other site 502558000512 H-loop/switch region; other site 502558000513 CcmB protein; Region: CcmB; cl01016 502558000514 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 502558000515 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 502558000516 active site 502558000517 tetramer interface; other site 502558000518 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 502558000519 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 502558000520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000521 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 502558000522 putative substrate translocation pore; other site 502558000523 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558000524 glycerate dehydrogenase; Provisional; Region: PRK06487 502558000525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000526 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 502558000527 gating phenylalanine in ion channel; other site 502558000528 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 502558000529 Helix-turn-helix domains; Region: HTH; cl00088 502558000530 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 502558000531 ornithine carbamoyltransferase; Validated; Region: PRK02102 502558000532 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 502558000533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000534 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558000535 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 502558000536 putative substrate translocation pore; other site 502558000537 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 502558000538 agmatine deiminase; Region: agmatine_aguA; TIGR03380 502558000539 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558000540 Helix-turn-helix domains; Region: HTH; cl00088 502558000541 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 502558000542 sequence-specific DNA binding site [nucleotide binding]; other site 502558000543 salt bridge; other site 502558000544 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 502558000545 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 502558000546 FtsX-like permease family; Region: FtsX; cl15850 502558000547 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 502558000548 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 502558000549 Walker A/P-loop; other site 502558000550 ATP binding site [chemical binding]; other site 502558000551 Q-loop/lid; other site 502558000552 ABC transporter signature motif; other site 502558000553 Walker B; other site 502558000554 D-loop; other site 502558000555 H-loop/switch region; other site 502558000556 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 502558000557 macrolide transporter subunit MacA; Provisional; Region: PRK11578 502558000558 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558000559 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 502558000560 active site 502558000561 phosphorylation site [posttranslational modification] 502558000562 intermolecular recognition site; other site 502558000563 dimerization interface [polypeptide binding]; other site 502558000564 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 502558000565 DNA binding site [nucleotide binding] 502558000566 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 502558000567 dimer interface [polypeptide binding]; other site 502558000568 phosphorylation site [posttranslational modification] 502558000569 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 502558000570 ATP binding site [chemical binding]; other site 502558000571 Mg2+ binding site [ion binding]; other site 502558000572 G-X-G motif; other site 502558000573 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 502558000574 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 502558000575 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 502558000576 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 502558000577 DNA binding residues [nucleotide binding] 502558000578 dimerization interface [polypeptide binding]; other site 502558000579 LamB/YcsF family; Region: LamB_YcsF; cl00664 502558000580 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 502558000581 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558000582 Helix-turn-helix domains; Region: HTH; cl00088 502558000583 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 502558000584 dimerization interface [polypeptide binding]; other site 502558000585 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 502558000586 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558000587 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 502558000588 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 502558000589 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 502558000590 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 502558000591 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 502558000592 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 502558000593 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558000594 active site 502558000595 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 502558000596 AMP-binding enzyme; Region: AMP-binding; cl15778 502558000597 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 502558000598 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 502558000599 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 502558000600 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 502558000601 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 502558000602 ATP-grasp domain; Region: ATP-grasp_4; cl03087 502558000603 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 502558000604 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 502558000605 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 502558000606 carboxyltransferase (CT) interaction site; other site 502558000607 biotinylation site [posttranslational modification]; other site 502558000608 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 502558000609 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 502558000610 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 502558000611 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 502558000612 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 502558000613 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 502558000614 Ligand Binding Site [chemical binding]; other site 502558000615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000616 tricarballylate dehydrogenase; Validated; Region: PRK08274 502558000617 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 502558000618 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 502558000619 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 502558000620 DNA binding residues [nucleotide binding] 502558000621 dimerization interface [polypeptide binding]; other site 502558000622 aspartate aminotransferase; Provisional; Region: PRK06836 502558000623 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 502558000624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558000625 homodimer interface [polypeptide binding]; other site 502558000626 catalytic residue [active] 502558000627 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 502558000628 Ferritin-like domain; Region: Ferritin; pfam00210 502558000629 ferroxidase diiron center [ion binding]; other site 502558000630 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 502558000631 DNA binding residues [nucleotide binding] 502558000632 dimerization interface [polypeptide binding]; other site 502558000633 hypothetical protein; Validated; Region: PRK07121 502558000634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558000636 Helix-turn-helix domains; Region: HTH; cl00088 502558000637 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; cd05466 502558000638 dimerization interface [polypeptide binding]; other site 502558000639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000640 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558000641 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 502558000642 ZIP Zinc transporter; Region: Zip; pfam02535 502558000643 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 502558000644 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 502558000645 dimer interface [polypeptide binding]; other site 502558000646 active site 502558000647 metal binding site [ion binding]; metal-binding site 502558000648 Membrane protein of unknown function; Region: DUF360; cl00850 502558000649 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 502558000650 Amidinotransferase; Region: Amidinotransf; cl12043 502558000651 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 502558000652 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 502558000653 S-adenosylmethionine binding site [chemical binding]; other site 502558000654 D5 N terminal like; Region: D5_N; cl07360 502558000655 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 502558000656 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 502558000657 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 502558000658 non-specific DNA binding site [nucleotide binding]; other site 502558000659 salt bridge; other site 502558000660 sequence-specific DNA binding site [nucleotide binding]; other site 502558000661 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 502558000662 non-specific DNA binding site [nucleotide binding]; other site 502558000663 salt bridge; other site 502558000664 sequence-specific DNA binding site [nucleotide binding]; other site 502558000665 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 502558000666 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 502558000667 catalytic residues [active] 502558000668 catalytic nucleophile [active] 502558000669 Recombinase; Region: Recombinase; pfam07508 502558000670 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 502558000671 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 502558000672 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558000673 metal binding site [ion binding]; metal-binding site 502558000674 active site 502558000675 I-site; other site 502558000676 PAS fold; Region: PAS_3; pfam08447 502558000677 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558000678 metal binding site [ion binding]; metal-binding site 502558000679 active site 502558000680 I-site; other site 502558000681 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558000682 Maf-like protein; Region: Maf; pfam02545 502558000683 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 502558000684 active site 502558000685 dimer interface [polypeptide binding]; other site 502558000686 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 502558000687 active site 502558000688 FtsH Extracellular; Region: FtsH_ext; pfam06480 502558000689 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 502558000690 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 502558000691 Walker A motif; other site 502558000692 ATP binding site [chemical binding]; other site 502558000693 Walker B motif; other site 502558000694 arginine finger; other site 502558000695 Peptidase family M41; Region: Peptidase_M41; pfam01434 502558000696 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 502558000697 dihydropteroate synthase; Region: DHPS; TIGR01496 502558000698 substrate binding pocket [chemical binding]; other site 502558000699 dimer interface [polypeptide binding]; other site 502558000700 inhibitor binding site; inhibition site 502558000701 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 502558000702 catalytic center binding site [active] 502558000703 ATP binding site [chemical binding]; other site 502558000704 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 502558000705 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 502558000706 FAD binding domain; Region: FAD_binding_2; pfam00890 502558000707 hypothetical protein; Validated; Region: PRK07121 502558000708 transcriptional regulator NarL; Provisional; Region: PRK10651 502558000709 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 502558000710 DNA binding residues [nucleotide binding] 502558000711 dimerization interface [polypeptide binding]; other site 502558000712 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 502558000713 MatE; Region: MatE; cl10513 502558000714 MatE; Region: MatE; cl10513 502558000715 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 502558000716 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558000717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000718 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 502558000719 DNA binding residues [nucleotide binding] 502558000720 dimerization interface [polypeptide binding]; other site 502558000721 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 502558000722 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 502558000723 dimer interface [polypeptide binding]; other site 502558000724 active site 502558000725 CoA binding pocket [chemical binding]; other site 502558000726 VanW like protein; Region: VanW; pfam04294 502558000727 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000728 Predicted membrane protein [Function unknown]; Region: COG1470 502558000729 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000730 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000731 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000732 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 502558000733 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000734 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000735 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000736 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000737 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000738 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000739 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000740 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000741 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000742 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000743 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000744 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000745 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000746 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000747 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000748 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000749 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000750 Fibronectin type III-like domain; Region: Fn3-like; cl15273 502558000751 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 502558000752 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 502558000753 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 502558000754 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558000755 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558000756 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 502558000757 putative substrate translocation pore; other site 502558000758 chaperone protein DnaK; Region: prok_dnaK; TIGR02350 502558000759 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 502558000760 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558000761 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558000762 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 502558000763 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 502558000764 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 502558000765 active site 502558000766 FMN binding site [chemical binding]; other site 502558000767 substrate binding site [chemical binding]; other site 502558000768 putative catalytic residue [active] 502558000769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000770 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 502558000771 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 502558000772 substrate binding site [chemical binding]; other site 502558000773 oxyanion hole (OAH) forming residues; other site 502558000774 trimer interface [polypeptide binding]; other site 502558000775 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 502558000776 AMP-binding enzyme; Region: AMP-binding; cl15778 502558000777 AMP-binding enzyme; Region: AMP-binding; cl15778 502558000778 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 502558000779 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 502558000780 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 502558000781 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558000782 active site 502558000783 TIGR03084 family protein; Region: TIGR03084 502558000784 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 502558000785 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 502558000786 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 502558000787 Coenzyme A binding pocket [chemical binding]; other site 502558000788 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 502558000789 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 502558000790 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 502558000791 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 502558000792 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 502558000793 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 502558000794 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 502558000795 Walker A motif; other site 502558000796 ATP binding site [chemical binding]; other site 502558000797 Walker B motif; other site 502558000798 arginine finger; other site 502558000799 Helix-turn-helix domains; Region: HTH; cl00088 502558000800 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 502558000801 dimer interface [polypeptide binding]; other site 502558000802 phosphorylation site [posttranslational modification] 502558000803 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 502558000804 ATP binding site [chemical binding]; other site 502558000805 Mg2+ binding site [ion binding]; other site 502558000806 G-X-G motif; other site 502558000807 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558000808 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 502558000809 active site 502558000810 phosphorylation site [posttranslational modification] 502558000811 intermolecular recognition site; other site 502558000812 dimerization interface [polypeptide binding]; other site 502558000813 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 502558000814 DNA binding site [nucleotide binding] 502558000815 Type III pantothenate kinase; Region: Pan_kinase; cl09130 502558000816 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 502558000817 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 502558000818 DNA binding residues [nucleotide binding] 502558000819 dimerization interface [polypeptide binding]; other site 502558000820 glycerol-3-phosphate dehydrogenase; Region: PLN02464 502558000821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000822 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558000823 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06069 502558000824 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 502558000825 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 502558000826 Potassium binding sites [ion binding]; other site 502558000827 Cesium cation binding sites [ion binding]; other site 502558000828 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 502558000829 active site 502558000830 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 502558000831 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 502558000832 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 502558000833 DNA binding residues [nucleotide binding] 502558000834 dimerization interface [polypeptide binding]; other site 502558000835 hypothetical protein; Validated; Region: PRK07121 502558000836 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 502558000837 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558000838 metal binding site [ion binding]; metal-binding site 502558000839 active site 502558000840 I-site; other site 502558000841 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558000842 PAS domain; Region: PAS_9; pfam13426 502558000843 PAS fold; Region: PAS_3; pfam08447 502558000844 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 502558000845 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 502558000846 PAS fold; Region: PAS_3; pfam08447 502558000847 heat shock protein 90; Provisional; Region: PRK05218 502558000848 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 502558000849 ATP binding site [chemical binding]; other site 502558000850 Mg2+ binding site [ion binding]; other site 502558000851 G-X-G motif; other site 502558000852 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 502558000853 dimer interface [polypeptide binding]; other site 502558000854 FMN binding site [chemical binding]; other site 502558000855 Helix-turn-helix domains; Region: HTH; cl00088 502558000856 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 502558000857 Helix-turn-helix domains; Region: HTH; cl00088 502558000858 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 502558000859 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; cd05466 502558000860 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 502558000861 amphipathic channel; other site 502558000862 Asn-Pro-Ala signature motifs; other site 502558000863 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 502558000864 Ligand Binding Site [chemical binding]; other site 502558000865 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 502558000866 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 502558000867 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 502558000868 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 502558000869 active site residue [active] 502558000870 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558000871 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 502558000872 putative substrate translocation pore; other site 502558000873 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 502558000874 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 502558000875 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 502558000876 Isochorismatase family; Region: Isochorismatase; pfam00857 502558000877 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 502558000878 catalytic triad [active] 502558000879 conserved cis-peptide bond; other site 502558000880 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 502558000881 diiron binding motif [ion binding]; other site 502558000882 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 502558000883 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 502558000884 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 502558000885 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 502558000886 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558000887 active site 502558000888 I-site; other site 502558000889 metal binding site [ion binding]; metal-binding site 502558000890 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558000891 PAS domain S-box; Region: sensory_box; TIGR00229 502558000892 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 502558000893 putative active site [active] 502558000894 heme pocket [chemical binding]; other site 502558000895 PAS domain; Region: PAS_9; pfam13426 502558000896 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 502558000897 putative active site [active] 502558000898 heme pocket [chemical binding]; other site 502558000899 PAS fold; Region: PAS_3; pfam08447 502558000900 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 502558000901 putative active site [active] 502558000902 heme pocket [chemical binding]; other site 502558000903 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558000904 metal binding site [ion binding]; metal-binding site 502558000905 active site 502558000906 I-site; other site 502558000907 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 502558000908 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 502558000909 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 502558000910 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 502558000911 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 502558000912 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 502558000913 GatB domain; Region: GatB_Yqey; cl11497 502558000914 Bacterial PH domain; Region: DUF304; cl01348 502558000915 Bacterial PH domain; Region: DUF304; cl01348 502558000916 Predicted membrane protein [Function unknown]; Region: COG3428 502558000917 Bacterial PH domain; Region: DUF304; cl01348 502558000918 Haemolysin-III related; Region: HlyIII; cl03831 502558000919 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 502558000920 Domain of unknown function DUF21; Region: DUF21; pfam01595 502558000921 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 502558000922 Transporter associated domain; Region: CorC_HlyC; cl08393 502558000923 PspC domain; Region: PspC; cl00864 502558000924 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 502558000925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000926 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 502558000927 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 502558000928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000929 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 502558000930 adenylosuccinate lyase; Provisional; Region: PRK07492 502558000931 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 502558000932 tetramer interface [polypeptide binding]; other site 502558000933 active site 502558000934 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 502558000935 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 502558000936 4Fe-4S binding domain; Region: Fer4_5; pfam12801 502558000937 4Fe-4S binding domain; Region: Fer4_5; pfam12801 502558000938 4Fe-4S binding domain; Region: Fer4; cl02805 502558000939 NapD protein; Region: NapD; cl01163 502558000940 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 502558000941 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 502558000942 [4Fe-4S] binding site [ion binding]; other site 502558000943 molybdopterin cofactor binding site; other site 502558000944 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 502558000945 molybdopterin cofactor binding site; other site 502558000946 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 502558000947 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 502558000948 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558000949 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 502558000950 active site 502558000951 phosphorylation site [posttranslational modification] 502558000952 intermolecular recognition site; other site 502558000953 dimerization interface [polypeptide binding]; other site 502558000954 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 502558000955 DNA binding site [nucleotide binding] 502558000956 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 502558000957 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 502558000958 dimerization interface [polypeptide binding]; other site 502558000959 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 502558000960 dimer interface [polypeptide binding]; other site 502558000961 phosphorylation site [posttranslational modification] 502558000962 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 502558000963 ATP binding site [chemical binding]; other site 502558000964 Mg2+ binding site [ion binding]; other site 502558000965 G-X-G motif; other site 502558000966 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 502558000967 active site 502558000968 ATP binding site [chemical binding]; other site 502558000969 substrate binding site [chemical binding]; other site 502558000970 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 502558000971 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 502558000972 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 502558000973 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 502558000974 dimerization interface [polypeptide binding]; other site 502558000975 ATP binding site [chemical binding]; other site 502558000976 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 502558000977 dimerization interface [polypeptide binding]; other site 502558000978 ATP binding site [chemical binding]; other site 502558000979 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 502558000980 putative active site [active] 502558000981 catalytic triad [active] 502558000982 Erythromycin esterase; Region: Erythro_esteras; pfam05139 502558000983 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 502558000984 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 502558000985 Isochorismatase family; Region: Isochorismatase; pfam00857 502558000986 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 502558000987 catalytic triad [active] 502558000988 conserved cis-peptide bond; other site 502558000989 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 502558000990 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 502558000991 DNA binding residues [nucleotide binding] 502558000992 dimerization interface [polypeptide binding]; other site 502558000993 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 502558000994 hypothetical protein; Validated; Region: PRK07121 502558000995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558000996 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 502558000997 Asp23 family; Region: Asp23; cl00574 502558000998 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 502558000999 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 502558001000 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 502558001001 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 502558001002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001003 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 502558001004 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 502558001005 catalytic loop [active] 502558001006 iron binding site [ion binding]; other site 502558001007 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 502558001008 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 502558001009 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 502558001010 NMT1-like family; Region: NMT1_2; cl15260 502558001011 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 502558001012 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 502558001013 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; cl00427 502558001014 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001015 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 502558001016 Walker A/P-loop; other site 502558001017 ATP binding site [chemical binding]; other site 502558001018 Q-loop/lid; other site 502558001019 ABC transporter signature motif; other site 502558001020 Walker B; other site 502558001021 D-loop; other site 502558001022 H-loop/switch region; other site 502558001023 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 502558001024 classical (c) SDRs; Region: SDR_c; cd05233 502558001025 NAD(P) binding site [chemical binding]; other site 502558001026 active site 502558001027 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 502558001028 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 502558001029 DNA binding residues [nucleotide binding] 502558001030 dimerization interface [polypeptide binding]; other site 502558001031 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 502558001032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001033 aconitate hydratase; Validated; Region: PRK09277 502558001034 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 502558001035 substrate binding site [chemical binding]; other site 502558001036 ligand binding site [chemical binding]; other site 502558001037 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 502558001038 substrate binding site [chemical binding]; other site 502558001039 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 502558001040 23S rRNA interface [nucleotide binding]; other site 502558001041 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 502558001042 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 502558001043 peripheral dimer interface [polypeptide binding]; other site 502558001044 core dimer interface [polypeptide binding]; other site 502558001045 L10 interface [polypeptide binding]; other site 502558001046 L11 interface [polypeptide binding]; other site 502558001047 putative EF-Tu interaction site [polypeptide binding]; other site 502558001048 putative EF-G interaction site [polypeptide binding]; other site 502558001049 Protein of unknown function (DUF4013); Region: DUF4013; pfam13197 502558001050 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 502558001051 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 502558001052 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 502558001053 dimer interface [polypeptide binding]; other site 502558001054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558001055 catalytic residue [active] 502558001056 phytoene desaturase; Region: crtI_fam; TIGR02734 502558001057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001058 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 502558001059 active site lid residues [active] 502558001060 substrate binding pocket [chemical binding]; other site 502558001061 catalytic residues [active] 502558001062 substrate-Mg2+ binding site; other site 502558001063 aspartate-rich region 1; other site 502558001064 aspartate-rich region 2; other site 502558001065 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 502558001066 Integral membrane protein DUF92; Region: DUF92; cl00793 502558001067 HipA N-terminal domain; Region: Couple_hipA; cl11853 502558001068 HipA-like N-terminal domain; Region: HipA_N; pfam07805 502558001069 HipA-like C-terminal domain; Region: HipA_C; pfam07804 502558001070 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 502558001071 non-specific DNA binding site [nucleotide binding]; other site 502558001072 salt bridge; other site 502558001073 sequence-specific DNA binding site [nucleotide binding]; other site 502558001074 transcriptional regulator MalT; Provisional; Region: PRK04841 502558001075 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 502558001076 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 502558001077 putative ATP binding site [chemical binding]; other site 502558001078 putative substrate interface [chemical binding]; other site 502558001079 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 502558001080 active site 502558001081 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 502558001082 non-specific DNA binding site [nucleotide binding]; other site 502558001083 salt bridge; other site 502558001084 sequence-specific DNA binding site [nucleotide binding]; other site 502558001085 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 502558001086 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 502558001087 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 502558001088 MatE; Region: MatE; cl10513 502558001089 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558001090 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 502558001091 active site 502558001092 phosphorylation site [posttranslational modification] 502558001093 intermolecular recognition site; other site 502558001094 dimerization interface [polypeptide binding]; other site 502558001095 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 502558001096 DNA binding site [nucleotide binding] 502558001097 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 502558001098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001099 Walker A/P-loop; other site 502558001100 ATP binding site [chemical binding]; other site 502558001101 Q-loop/lid; other site 502558001102 ABC transporter signature motif; other site 502558001103 Walker B; other site 502558001104 D-loop; other site 502558001105 H-loop/switch region; other site 502558001106 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 502558001107 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 502558001108 phosphorylation site [posttranslational modification] 502558001109 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 502558001110 Protein of unknown function (DUF419); Region: DUF419; cl15265 502558001111 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 502558001112 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558001113 Helix-turn-helix domains; Region: HTH; cl00088 502558001114 H+ Antiporter protein; Region: 2A0121; TIGR00900 502558001115 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 502558001116 putative substrate translocation pore; other site 502558001117 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 502558001118 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 502558001119 DNA binding residues [nucleotide binding] 502558001120 hypothetical protein; Validated; Region: PRK07121 502558001121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001122 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 502558001123 active site 502558001124 ADP/pyrophosphate binding site [chemical binding]; other site 502558001125 allosteric effector site; other site 502558001126 dimerization interface [polypeptide binding]; other site 502558001127 fructose-1,6-bisphosphate binding site; other site 502558001128 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 502558001129 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 502558001130 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 502558001131 FeS/SAM binding site; other site 502558001132 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 502558001133 ATP cone domain; Region: ATP-cone; pfam03477 502558001134 Class III ribonucleotide reductase; Region: RNR_III; cd01675 502558001135 effector binding site; other site 502558001136 active site 502558001137 Zn binding site [ion binding]; other site 502558001138 glycine loop; other site 502558001139 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 502558001140 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 502558001141 DNA binding residues [nucleotide binding] 502558001142 dimerization interface [polypeptide binding]; other site 502558001143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001144 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558001145 recombination factor protein RarA; Reviewed; Region: PRK13342 502558001146 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 502558001147 Walker A motif; other site 502558001148 ATP binding site [chemical binding]; other site 502558001149 Walker B motif; other site 502558001150 arginine finger; other site 502558001151 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 502558001152 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 502558001153 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 502558001154 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 502558001155 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 502558001156 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 502558001157 motif 1; other site 502558001158 active site 502558001159 motif 2; other site 502558001160 motif 3; other site 502558001161 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 502558001162 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 502558001163 YceG-like family; Region: YceG; pfam02618 502558001164 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 502558001165 dimerization interface [polypeptide binding]; other site 502558001166 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 502558001167 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 502558001168 active site 502558001169 motif I; other site 502558001170 motif II; other site 502558001171 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 502558001172 Tetramer interface [polypeptide binding]; other site 502558001173 active site 502558001174 FMN-binding site [chemical binding]; other site 502558001175 shikimate kinase; Reviewed; Region: aroK; PRK00131 502558001176 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 502558001177 ADP binding site [chemical binding]; other site 502558001178 magnesium binding site [ion binding]; other site 502558001179 putative shikimate binding site; other site 502558001180 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 502558001181 active site 502558001182 dimer interface [polypeptide binding]; other site 502558001183 metal binding site [ion binding]; metal-binding site 502558001184 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 502558001185 active site 502558001186 trimer interface [polypeptide binding]; other site 502558001187 dimer interface [polypeptide binding]; other site 502558001188 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 502558001189 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 502558001190 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 502558001191 active site 502558001192 elongation factor P; Validated; Region: PRK00529 502558001193 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 502558001194 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 502558001195 RNA binding site [nucleotide binding]; other site 502558001196 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 502558001197 RNA binding site [nucleotide binding]; other site 502558001198 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 502558001199 P2 response regulator binding domain; Region: P2; pfam07194 502558001200 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 502558001201 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558001202 metal binding site [ion binding]; metal-binding site 502558001203 active site 502558001204 I-site; other site 502558001205 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 502558001206 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 502558001207 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 502558001208 dimer interface [polypeptide binding]; other site 502558001209 putative CheW interface [polypeptide binding]; other site 502558001210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001211 Helix-turn-helix domains; Region: HTH; cl00088 502558001212 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 502558001213 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 502558001214 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 502558001215 Methyltransferase domain; Region: Methyltransf_31; pfam13847 502558001216 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 502558001217 S-adenosylmethionine binding site [chemical binding]; other site 502558001218 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558001219 Helix-turn-helix domains; Region: HTH; cl00088 502558001220 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 502558001221 non-specific DNA binding site [nucleotide binding]; other site 502558001222 salt bridge; other site 502558001223 sequence-specific DNA binding site [nucleotide binding]; other site 502558001224 integrase; Provisional; Region: int; PHA02601 502558001225 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 502558001226 Int/Topo IB signature motif; other site 502558001227 Restriction endonuclease; Region: Mrr_cat; cl00516 502558001228 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 502558001229 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 502558001230 P-loop; other site 502558001231 Magnesium ion binding site [ion binding]; other site 502558001232 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001233 ParB-like nuclease domain; Region: ParBc; cl02129 502558001234 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 502558001235 Abi-like protein; Region: Abi_2; cl01988 502558001236 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 502558001237 active site 502558001238 catalytic site [active] 502558001239 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 502558001240 NlpC/P60 family; Region: NLPC_P60; cl11438 502558001241 AAA-like domain; Region: AAA_10; pfam12846 502558001242 Domain of unknown function DUF87; Region: DUF87; pfam01935 502558001243 PrgI family protein; Region: PrgI; pfam12666 502558001244 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 502558001245 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001246 Walker A motif; other site 502558001247 ATP binding site [chemical binding]; other site 502558001248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001249 Walker B motif; other site 502558001250 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 502558001251 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 502558001252 Walker A motif; other site 502558001253 ATP binding site [chemical binding]; other site 502558001254 Walker B motif; other site 502558001255 arginine finger; other site 502558001256 Helix-turn-helix domains; Region: HTH; cl00088 502558001257 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 502558001258 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 502558001259 Helix-turn-helix domains; Region: HTH; cl00088 502558001260 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 502558001261 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 502558001262 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 502558001263 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 502558001264 Walker A/P-loop; other site 502558001265 ATP binding site [chemical binding]; other site 502558001266 Q-loop/lid; other site 502558001267 ABC transporter signature motif; other site 502558001268 Walker B; other site 502558001269 D-loop; other site 502558001270 H-loop/switch region; other site 502558001271 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001272 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 502558001273 Walker A/P-loop; other site 502558001274 ATP binding site [chemical binding]; other site 502558001275 Q-loop/lid; other site 502558001276 ABC transporter signature motif; other site 502558001277 Walker B; other site 502558001278 D-loop; other site 502558001279 H-loop/switch region; other site 502558001280 Cobalt transport protein; Region: CbiQ; cl00463 502558001281 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 502558001282 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558001283 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001284 Walker A/P-loop; other site 502558001285 ATP binding site [chemical binding]; other site 502558001286 Q-loop/lid; other site 502558001287 ABC transporter signature motif; other site 502558001288 Walker B; other site 502558001289 D-loop; other site 502558001290 H-loop/switch region; other site 502558001291 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558001292 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558001293 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001294 Walker A/P-loop; other site 502558001295 ATP binding site [chemical binding]; other site 502558001296 Q-loop/lid; other site 502558001297 ABC transporter signature motif; other site 502558001298 Walker B; other site 502558001299 D-loop; other site 502558001300 H-loop/switch region; other site 502558001301 Helix-turn-helix domains; Region: HTH; cl00088 502558001302 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 502558001303 Helix-turn-helix domains; Region: HTH; cl00088 502558001304 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 502558001305 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 502558001306 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558001307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001308 Walker A/P-loop; other site 502558001309 ATP binding site [chemical binding]; other site 502558001310 Q-loop/lid; other site 502558001311 ABC transporter signature motif; other site 502558001312 Walker B; other site 502558001313 D-loop; other site 502558001314 H-loop/switch region; other site 502558001315 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558001316 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 502558001317 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001318 Walker A/P-loop; other site 502558001319 ATP binding site [chemical binding]; other site 502558001320 Q-loop/lid; other site 502558001321 ABC transporter signature motif; other site 502558001322 Walker B; other site 502558001323 D-loop; other site 502558001324 H-loop/switch region; other site 502558001325 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 502558001326 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 502558001327 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 502558001328 Walker A/P-loop; other site 502558001329 ATP binding site [chemical binding]; other site 502558001330 Q-loop/lid; other site 502558001331 ABC transporter signature motif; other site 502558001332 Walker B; other site 502558001333 D-loop; other site 502558001334 H-loop/switch region; other site 502558001335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001336 Walker A/P-loop; other site 502558001337 ATP binding site [chemical binding]; other site 502558001338 Q-loop/lid; other site 502558001339 ABC transporter signature motif; other site 502558001340 Walker B; other site 502558001341 D-loop; other site 502558001342 H-loop/switch region; other site 502558001343 Cobalt transport protein; Region: CbiQ; cl00463 502558001344 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 502558001345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 502558001346 Predicted methyltransferases [General function prediction only]; Region: COG0313 502558001347 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 502558001348 Protein of unknown function DUF45; Region: DUF45; cl00636 502558001349 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 502558001350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 502558001351 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 502558001352 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 502558001353 active site 502558001354 HIGH motif; other site 502558001355 KMSKS motif; other site 502558001356 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 502558001357 tRNA binding surface [nucleotide binding]; other site 502558001358 anticodon binding site; other site 502558001359 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 502558001360 dimer interface [polypeptide binding]; other site 502558001361 phosphorylation site [posttranslational modification] 502558001362 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 502558001363 ATP binding site [chemical binding]; other site 502558001364 Mg2+ binding site [ion binding]; other site 502558001365 G-X-G motif; other site 502558001366 Response regulator receiver domain; Region: Response_reg; pfam00072 502558001367 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 502558001368 active site 502558001369 phosphorylation site [posttranslational modification] 502558001370 intermolecular recognition site; other site 502558001371 dimerization interface [polypeptide binding]; other site 502558001372 MoxR-like ATPases [General function prediction only]; Region: COG0714 502558001373 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 502558001374 Walker A motif; other site 502558001375 ATP binding site [chemical binding]; other site 502558001376 Walker B motif; other site 502558001377 arginine finger; other site 502558001378 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 502558001379 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; cl00057 502558001380 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 502558001381 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 502558001382 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 502558001383 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 502558001384 Response regulator receiver domain; Region: Response_reg; pfam00072 502558001385 active site 502558001386 phosphorylation site [posttranslational modification] 502558001387 intermolecular recognition site; other site 502558001388 dimerization interface [polypeptide binding]; other site 502558001389 PAS domain S-box; Region: sensory_box; TIGR00229 502558001390 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 502558001391 putative active site [active] 502558001392 heme pocket [chemical binding]; other site 502558001393 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558001394 metal binding site [ion binding]; metal-binding site 502558001395 active site 502558001396 I-site; other site 502558001397 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558001398 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 502558001399 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 502558001400 active site 502558001401 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 502558001402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001403 Divergent AAA domain; Region: AAA_4; pfam04326 502558001404 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 502558001405 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 502558001406 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 502558001407 Helix-turn-helix domains; Region: HTH; cl00088 502558001408 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 502558001409 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 502558001410 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 502558001411 motif II; other site 502558001412 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 502558001413 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 502558001414 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 502558001415 NAD binding site [chemical binding]; other site 502558001416 dimer interface [polypeptide binding]; other site 502558001417 substrate binding site [chemical binding]; other site 502558001418 tetramer (dimer of dimers) interface [polypeptide binding]; other site 502558001419 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 502558001420 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 502558001421 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 502558001422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001423 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 502558001424 catalytic loop [active] 502558001425 iron binding site [ion binding]; other site 502558001426 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 502558001427 hypothetical protein; Provisional; Region: PRK13795 502558001428 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558001429 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558001430 molybdopterin cofactor binding site; other site 502558001431 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 502558001432 molybdopterin cofactor binding site; other site 502558001433 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 502558001434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001435 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 502558001436 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 502558001437 active site 502558001438 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 502558001439 active site 502558001440 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 502558001441 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 502558001442 Predicted transcriptional regulator [Transcription]; Region: COG2378 502558001443 WYL domain; Region: WYL; cl14852 502558001444 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 502558001445 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 502558001446 HIRAN domain; Region: HIRAN; cl07418 502558001447 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 502558001448 Fic/DOC family; Region: Fic; cl00960 502558001449 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558001450 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 502558001451 putative substrate translocation pore; other site 502558001452 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 502558001453 FOG: CBS domain [General function prediction only]; Region: COG0517 502558001454 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 502558001455 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; cl00234 502558001456 active site 502558001457 catalytic residues [active] 502558001458 metal binding site [ion binding]; metal-binding site 502558001459 aspartate kinase; Reviewed; Region: PRK06635 502558001460 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 502558001461 putative nucleotide binding site [chemical binding]; other site 502558001462 putative catalytic residues [active] 502558001463 putative Mg ion binding site [ion binding]; other site 502558001464 putative aspartate binding site [chemical binding]; other site 502558001465 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 502558001466 putative allosteric regulatory site; other site 502558001467 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 502558001468 putative allosteric regulatory residue; other site 502558001469 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 502558001470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001471 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 502558001472 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 502558001473 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 502558001474 RNA binding surface [nucleotide binding]; other site 502558001475 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 502558001476 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 502558001477 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 502558001478 YwpF-like protein; Region: YwpF; pfam14183 502558001479 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 502558001480 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 502558001481 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 502558001482 putative active site [active] 502558001483 putative metal binding site [ion binding]; other site 502558001484 Helix-turn-helix domains; Region: HTH; cl00088 502558001485 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 502558001486 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 502558001487 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 502558001488 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 502558001489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 502558001490 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 502558001491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 502558001492 transcriptional regulator EpsA; Region: EpsA; TIGR03020 502558001493 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 502558001494 DNA binding residues [nucleotide binding] 502558001495 dimerization interface [polypeptide binding]; other site 502558001496 hypothetical protein; Validated; Region: PRK07121 502558001497 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 502558001498 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 502558001499 DNA binding residues [nucleotide binding] 502558001500 dimerization interface [polypeptide binding]; other site 502558001501 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 502558001502 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 502558001503 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 502558001504 non-specific DNA binding site [nucleotide binding]; other site 502558001505 salt bridge; other site 502558001506 sequence-specific DNA binding site [nucleotide binding]; other site 502558001507 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 502558001508 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 502558001509 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 502558001510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001511 hypothetical protein; Validated; Region: PRK07121 502558001512 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 502558001513 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 502558001514 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 502558001515 DNA binding residues [nucleotide binding] 502558001516 dimerization interface [polypeptide binding]; other site 502558001517 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 502558001518 CoenzymeA binding site [chemical binding]; other site 502558001519 subunit interaction site [polypeptide binding]; other site 502558001520 PHB binding site; other site 502558001521 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 502558001522 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558001523 molybdopterin cofactor binding site; other site 502558001524 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558001525 molybdopterin cofactor binding site; other site 502558001526 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558001527 4Fe-4S binding domain; Region: Fer4; cl02805 502558001528 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 502558001529 Polysulphide reductase, NrfD; Region: NrfD; cl01295 502558001530 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 502558001531 Predicted transcriptional regulators [Transcription]; Region: COG1725 502558001532 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 502558001533 DNA-binding site [nucleotide binding]; DNA binding site 502558001534 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 502558001535 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 502558001536 pyruvate carboxylase subunit B; Validated; Region: PRK09282 502558001537 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 502558001538 active site 502558001539 catalytic residues [active] 502558001540 metal binding site [ion binding]; metal-binding site 502558001541 homodimer binding site [polypeptide binding]; other site 502558001542 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 502558001543 carboxyltransferase (CT) interaction site; other site 502558001544 biotinylation site [posttranslational modification]; other site 502558001545 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 502558001546 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 502558001547 ATP-grasp domain; Region: ATP-grasp_4; cl03087 502558001548 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 502558001549 Asp23 family; Region: Asp23; cl00574 502558001550 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 502558001551 putative RNA binding site [nucleotide binding]; other site 502558001552 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 502558001553 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 502558001554 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 502558001555 TPP-binding site; other site 502558001556 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 502558001557 PYR/PP interface [polypeptide binding]; other site 502558001558 dimer interface [polypeptide binding]; other site 502558001559 TPP binding site [chemical binding]; other site 502558001560 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 502558001561 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558001562 ferric uptake regulator; Provisional; Region: fur; PRK09462 502558001563 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 502558001564 metal binding site 2 [ion binding]; metal-binding site 502558001565 putative DNA binding helix; other site 502558001566 metal binding site 1 [ion binding]; metal-binding site 502558001567 dimer interface [polypeptide binding]; other site 502558001568 structural Zn2+ binding site [ion binding]; other site 502558001569 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 502558001570 RNA binding site [nucleotide binding]; other site 502558001571 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 502558001572 RNA binding site [nucleotide binding]; other site 502558001573 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 502558001574 RNA binding site [nucleotide binding]; other site 502558001575 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 502558001576 RNA binding site [nucleotide binding]; other site 502558001577 OpgC protein; Region: OpgC_C; cl00792 502558001578 Acyltransferase family; Region: Acyl_transf_3; pfam01757 502558001579 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 502558001580 catalytic triad [active] 502558001581 catalytic triad [active] 502558001582 oxyanion hole [active] 502558001583 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 502558001584 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 502558001585 Ligand Binding Site [chemical binding]; other site 502558001586 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 502558001587 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 502558001588 ATP-binding [chemical binding]; other site 502558001589 CoA-binding site [chemical binding]; other site 502558001590 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 502558001591 excinuclease ABC subunit B; Provisional; Region: PRK05298 502558001592 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 502558001593 ATP binding site [chemical binding]; other site 502558001594 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 502558001595 nucleotide binding region [chemical binding]; other site 502558001596 ATP-binding site [chemical binding]; other site 502558001597 Ultra-violet resistance protein B; Region: UvrB; pfam12344 502558001598 UvrB/uvrC motif; Region: UVR; pfam02151 502558001599 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 502558001600 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558001601 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 502558001602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001603 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 502558001604 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 502558001605 Walker A/P-loop; other site 502558001606 ATP binding site [chemical binding]; other site 502558001607 Q-loop/lid; other site 502558001608 ABC transporter signature motif; other site 502558001609 Walker B; other site 502558001610 D-loop; other site 502558001611 H-loop/switch region; other site 502558001612 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 502558001613 non-specific DNA binding site [nucleotide binding]; other site 502558001614 salt bridge; other site 502558001615 sequence-specific DNA binding site [nucleotide binding]; other site 502558001616 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 502558001617 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 502558001618 active site 502558001619 phosphorylation site [posttranslational modification] 502558001620 intermolecular recognition site; other site 502558001621 dimerization interface [polypeptide binding]; other site 502558001622 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 502558001623 DNA binding site [nucleotide binding] 502558001624 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 502558001625 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 502558001626 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 502558001627 Ligand Binding Site [chemical binding]; other site 502558001628 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 502558001629 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 502558001630 dimer interface [polypeptide binding]; other site 502558001631 phosphorylation site [posttranslational modification] 502558001632 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 502558001633 ATP binding site [chemical binding]; other site 502558001634 Mg2+ binding site [ion binding]; other site 502558001635 G-X-G motif; other site 502558001636 K+-transporting ATPase, c chain; Region: KdpC; cl00944 502558001637 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 502558001638 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 502558001639 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 502558001640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001641 FAD binding domain; Region: FAD_binding_2; pfam00890 502558001642 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 502558001643 DNA binding residues [nucleotide binding] 502558001644 dimerization interface [polypeptide binding]; other site 502558001645 ferredoxin; Validated; Region: PRK07118 502558001646 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 502558001647 FMN binding site [chemical binding]; other site 502558001648 dimer interface [polypeptide binding]; other site 502558001649 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 502558001650 hypothetical protein; Provisional; Region: PRK13795 502558001651 Helix-turn-helix domains; Region: HTH; cl00088 502558001652 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 502558001653 H+ Antiporter protein; Region: 2A0121; TIGR00900 502558001654 putative substrate translocation pore; other site 502558001655 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 502558001656 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 502558001657 active site 502558001658 Transglycosylase; Region: Transgly; cl07896 502558001659 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 502558001660 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 502558001661 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 502558001662 Walker A/P-loop; other site 502558001663 ATP binding site [chemical binding]; other site 502558001664 Q-loop/lid; other site 502558001665 ABC transporter signature motif; other site 502558001666 Walker B; other site 502558001667 D-loop; other site 502558001668 H-loop/switch region; other site 502558001669 Predicted transcriptional regulators [Transcription]; Region: COG1725 502558001670 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 502558001671 DNA-binding site [nucleotide binding]; DNA binding site 502558001672 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 502558001673 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 502558001674 4Fe-4S binding domain; Region: Fer4; cl02805 502558001675 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 502558001676 ArsC family; Region: ArsC; pfam03960 502558001677 putative ArsC-like catalytic residues; other site 502558001678 putative TRX-like catalytic residues [active] 502558001679 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 502558001680 putative active site [active] 502558001681 dimerization interface [polypeptide binding]; other site 502558001682 putative tRNAtyr binding site [nucleotide binding]; other site 502558001683 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 502558001684 TfoX N-terminal domain; Region: TfoX_N; cl01167 502558001685 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 502558001686 WHG domain; Region: WHG; pfam13305 502558001687 4Fe-4S binding domain; Region: Fer4_5; pfam12801 502558001688 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 502558001689 4Fe-4S binding domain; Region: Fer4; cl02805 502558001690 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 502558001691 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 502558001692 DNA binding residues [nucleotide binding] 502558001693 dimer interface [polypeptide binding]; other site 502558001694 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 502558001695 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 502558001696 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 502558001697 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 502558001698 Walker A motif; other site 502558001699 ATP binding site [chemical binding]; other site 502558001700 Walker B motif; other site 502558001701 arginine finger; other site 502558001702 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 502558001703 metal ion-dependent adhesion site (MIDAS); other site 502558001704 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 502558001705 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 502558001706 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 502558001707 putative active site [active] 502558001708 homotetrameric interface [polypeptide binding]; other site 502558001709 metal binding site [ion binding]; metal-binding site 502558001710 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 502558001711 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 502558001712 Walker A/P-loop; other site 502558001713 ATP binding site [chemical binding]; other site 502558001714 Q-loop/lid; other site 502558001715 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 502558001716 Q-loop/lid; other site 502558001717 ABC transporter signature motif; other site 502558001718 Walker B; other site 502558001719 D-loop; other site 502558001720 H-loop/switch region; other site 502558001721 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 502558001722 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558001723 putative substrate translocation pore; other site 502558001724 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 502558001725 FOG: CBS domain [General function prediction only]; Region: COG0517 502558001726 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 502558001727 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 502558001728 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 502558001729 Walker A/P-loop; other site 502558001730 ATP binding site [chemical binding]; other site 502558001731 Q-loop/lid; other site 502558001732 ABC transporter signature motif; other site 502558001733 Walker B; other site 502558001734 D-loop; other site 502558001735 H-loop/switch region; other site 502558001736 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 502558001737 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 502558001738 Walker A/P-loop; other site 502558001739 ATP binding site [chemical binding]; other site 502558001740 Q-loop/lid; other site 502558001741 ABC transporter signature motif; other site 502558001742 Walker B; other site 502558001743 D-loop; other site 502558001744 H-loop/switch region; other site 502558001745 Cobalt transport protein; Region: CbiQ; cl00463 502558001746 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 502558001747 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 502558001748 B3/4 domain; Region: B3_4; cl11458 502558001749 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 502558001750 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 502558001751 putative active site [active] 502558001752 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558001753 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 502558001754 active site 502558001755 phosphorylation site [posttranslational modification] 502558001756 intermolecular recognition site; other site 502558001757 dimerization interface [polypeptide binding]; other site 502558001758 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 502558001759 DNA binding site [nucleotide binding] 502558001760 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 502558001761 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 502558001762 dimer interface [polypeptide binding]; other site 502558001763 phosphorylation site [posttranslational modification] 502558001764 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 502558001765 ATP binding site [chemical binding]; other site 502558001766 Mg2+ binding site [ion binding]; other site 502558001767 G-X-G motif; other site 502558001768 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 502558001769 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 502558001770 putative active site [active] 502558001771 endonuclease IV; Provisional; Region: PRK01060 502558001772 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 502558001773 AP (apurinic/apyrimidinic) site pocket; other site 502558001774 DNA interaction; other site 502558001775 Metal-binding active site; metal-binding site 502558001776 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 502558001777 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 502558001778 NAD(P) binding site [chemical binding]; other site 502558001779 catalytic residues [active] 502558001780 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 502558001781 metal binding site [ion binding]; metal-binding site 502558001782 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 502558001783 active site 502558001784 NAD binding site [chemical binding]; other site 502558001785 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 502558001786 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 502558001787 protein binding site [polypeptide binding]; other site 502558001788 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 502558001789 putative nucleotide binding site [chemical binding]; other site 502558001790 uridine monophosphate binding site [chemical binding]; other site 502558001791 homohexameric interface [polypeptide binding]; other site 502558001792 ribosome recycling factor; Reviewed; Region: frr; PRK00083 502558001793 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 502558001794 hinge region; other site 502558001795 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 502558001796 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 502558001797 catalytic residue [active] 502558001798 putative FPP diphosphate binding site; other site 502558001799 putative FPP binding hydrophobic cleft; other site 502558001800 dimer interface [polypeptide binding]; other site 502558001801 putative IPP diphosphate binding site; other site 502558001802 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 502558001803 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 502558001804 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 502558001805 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 502558001806 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 502558001807 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 502558001808 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 502558001809 Walker A motif; other site 502558001810 ATP binding site [chemical binding]; other site 502558001811 Walker B motif; other site 502558001812 arginine finger; other site 502558001813 Helix-turn-helix domains; Region: HTH; cl00088 502558001814 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 502558001815 Citrate transporter; Region: CitMHS; pfam03600 502558001816 transmembrane helices; other site 502558001817 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 502558001818 Ligand Binding Site [chemical binding]; other site 502558001819 Electron transfer flavoprotein domain; Region: ETF; pfam01012 502558001820 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 502558001821 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; cd01985 502558001822 Ligand binding site [chemical binding]; other site 502558001823 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 502558001824 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 502558001825 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558001826 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 502558001827 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 502558001828 active site 502558001829 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 502558001830 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 502558001831 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 502558001832 AMP-binding enzyme; Region: AMP-binding; cl15778 502558001833 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 502558001834 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 502558001835 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 502558001836 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 502558001837 PemK-like protein; Region: PemK; cl00995 502558001838 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 502558001839 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 502558001840 active site 502558001841 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 502558001842 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 502558001843 putative substrate binding region [chemical binding]; other site 502558001844 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 502558001845 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 502558001846 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 502558001847 prolyl-tRNA synthetase; Provisional; Region: PRK09194 502558001848 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 502558001849 dimer interface [polypeptide binding]; other site 502558001850 motif 1; other site 502558001851 active site 502558001852 motif 2; other site 502558001853 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 502558001854 putative deacylase active site [active] 502558001855 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 502558001856 active site 502558001857 motif 3; other site 502558001858 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 502558001859 anticodon binding site; other site 502558001860 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 502558001861 motif II; other site 502558001862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558001863 Helix-turn-helix domains; Region: HTH; cl00088 502558001864 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; cd05466 502558001865 dimerization interface [polypeptide binding]; other site 502558001866 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 502558001867 EamA-like transporter family; Region: EamA; cl01037 502558001868 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 502558001869 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 502558001870 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 502558001871 ATP binding site [chemical binding]; other site 502558001872 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 502558001873 non-specific DNA binding site [nucleotide binding]; other site 502558001874 salt bridge; other site 502558001875 sequence-specific DNA binding site [nucleotide binding]; other site 502558001876 ATP synthase I chain; Region: ATP_synt_I; cl09170 502558001877 Polysulphide reductase, NrfD; Region: NrfD; cl01295 502558001878 Predicted transcriptional regulators [Transcription]; Region: COG1725 502558001879 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 502558001880 DNA-binding site [nucleotide binding]; DNA binding site 502558001881 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 502558001882 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 502558001883 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558001884 molybdopterin cofactor binding site; other site 502558001885 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558001886 molybdopterin cofactor binding site; other site 502558001887 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558001888 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 502558001889 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 502558001890 ATP binding site [chemical binding]; other site 502558001891 Mg++ binding site [ion binding]; other site 502558001892 motif III; other site 502558001893 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 502558001894 nucleotide binding region [chemical binding]; other site 502558001895 ATP-binding site [chemical binding]; other site 502558001896 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 502558001897 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 502558001898 Chain length determinant protein; Region: Wzz; cl15801 502558001899 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 502558001900 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 502558001901 Nucleotide binding site [chemical binding]; other site 502558001902 DTAP/Switch II; other site 502558001903 Switch I; other site 502558001904 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 502558001905 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; Region: NGN_Bact_2; cd09889 502558001906 Transcription antiterminator [Transcription]; Region: NusG; COG0250 502558001907 Bacterial sugar transferase; Region: Bac_transf; cl00939 502558001908 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 502558001909 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 502558001910 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 502558001911 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 502558001912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001913 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 502558001914 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 502558001915 active site 502558001916 homodimer interface [polypeptide binding]; other site 502558001917 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 502558001918 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 502558001919 putative acyl transferase; Provisional; Region: PRK10191 502558001920 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 502558001921 putative trimer interface [polypeptide binding]; other site 502558001922 putative CoA binding site [chemical binding]; other site 502558001923 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 502558001924 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 502558001925 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 502558001926 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 502558001927 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 502558001928 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 502558001929 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 502558001930 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 502558001931 dimer interface [polypeptide binding]; other site 502558001932 active site 502558001933 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 502558001934 Substrate binding site; other site 502558001935 Mg++ binding site; other site 502558001936 metal-binding site 502558001937 Mg++ binding site; other site 502558001938 metal-binding site 502558001939 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 502558001940 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 502558001941 active site 502558001942 motif I; other site 502558001943 motif II; other site 502558001944 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 502558001945 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 502558001946 NADP-binding site; other site 502558001947 homotetramer interface [polypeptide binding]; other site 502558001948 substrate binding site [chemical binding]; other site 502558001949 homodimer interface [polypeptide binding]; other site 502558001950 active site 502558001951 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 502558001952 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 502558001953 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 502558001954 catalytic residue [active] 502558001955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558001956 NAD(P) binding site [chemical binding]; other site 502558001957 active site 502558001958 Fic family protein [Function unknown]; Region: COG3177 502558001959 Fic/DOC family; Region: Fic; cl00960 502558001960 Helix-turn-helix domains; Region: HTH; cl00088 502558001961 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 502558001962 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 502558001963 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 502558001964 YacP-like NYN domain; Region: NYN_YacP; cl01491 502558001965 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 502558001966 Predicted membrane protein [Function unknown]; Region: COG1511 502558001967 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 502558001968 Helix-turn-helix domains; Region: HTH; cl00088 502558001969 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 502558001970 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 502558001971 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 502558001972 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 502558001973 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 502558001974 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 502558001975 RPB1 interaction site [polypeptide binding]; other site 502558001976 RPB10 interaction site [polypeptide binding]; other site 502558001977 RPB11 interaction site [polypeptide binding]; other site 502558001978 RPB3 interaction site [polypeptide binding]; other site 502558001979 RPB12 interaction site [polypeptide binding]; other site 502558001980 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional; Region: PRK14906 502558001981 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 502558001982 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 502558001983 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 502558001984 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 502558001985 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 502558001986 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 502558001987 G-loop; other site 502558001988 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 502558001989 DNA binding site [nucleotide binding] 502558001990 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 502558001991 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 502558001992 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 502558001993 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 502558001994 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 502558001995 active site 502558001996 substrate binding site [chemical binding]; other site 502558001997 metal binding site [ion binding]; metal-binding site 502558001998 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558001999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002000 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 502558002001 DNA binding residues [nucleotide binding] 502558002002 dimerization interface [polypeptide binding]; other site 502558002003 polyphosphate kinase; Provisional; Region: PRK05443 502558002004 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 502558002005 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 502558002006 Catalytic C-terminal domain, first repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C1_unchar; cd09166 502558002007 putative domain interface [polypeptide binding]; other site 502558002008 putative active site [active] 502558002009 catalytic site [active] 502558002010 Catalytic C-terminal domain, second repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C2_unchar; cd09169 502558002011 putative domain interface [polypeptide binding]; other site 502558002012 putative active site [active] 502558002013 catalytic site [active] 502558002014 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 502558002015 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 502558002016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558002017 active site 502558002018 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 502558002019 active site 502558002020 catalytic site [active] 502558002021 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 502558002022 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 502558002023 dimerization interface [polypeptide binding]; other site 502558002024 putative ATP binding site [chemical binding]; other site 502558002025 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 502558002026 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 502558002027 active site 502558002028 substrate binding site [chemical binding]; other site 502558002029 cosubstrate binding site; other site 502558002030 catalytic site [active] 502558002031 Membrane transport protein; Region: Mem_trans; cl09117 502558002032 XdhC Rossmann domain; Region: XdhC_C; pfam13478 502558002033 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 502558002034 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 502558002035 purine monophosphate binding site [chemical binding]; other site 502558002036 dimer interface [polypeptide binding]; other site 502558002037 putative catalytic residues [active] 502558002038 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 502558002039 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 502558002040 ATP-grasp domain; Region: ATP-grasp_4; cl03087 502558002041 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 502558002042 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 502558002043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558002044 metal binding site [ion binding]; metal-binding site 502558002045 active site 502558002046 I-site; other site 502558002047 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558002048 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 502558002049 CoenzymeA binding site [chemical binding]; other site 502558002050 subunit interaction site [polypeptide binding]; other site 502558002051 PHB binding site; other site 502558002052 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 502558002053 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 502558002054 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558002055 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 502558002056 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 502558002057 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 502558002058 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 502558002059 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 502558002060 putative substrate translocation pore; other site 502558002061 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 502558002062 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558002063 active site 502558002064 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 502558002065 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 502558002066 AMP-binding enzyme; Region: AMP-binding; cl15778 502558002067 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 502558002068 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558002069 active site 502558002070 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 502558002071 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 502558002072 Helix-turn-helix domains; Region: HTH; cl00088 502558002073 Predicted acyl esterases [General function prediction only]; Region: COG2936 502558002074 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 502558002075 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 502558002076 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 502558002077 Phosphopantetheine attachment site; Region: PP-binding; cl09936 502558002078 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 502558002079 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 502558002080 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 502558002081 Acetokinase family; Region: Acetate_kinase; cl01029 502558002082 MULE transposase domain; Region: MULE; pfam10551 502558002083 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 502558002084 FeS/SAM binding site; other site 502558002085 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 502558002086 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 502558002087 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 502558002088 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 502558002089 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 502558002090 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 502558002091 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 502558002092 dimer interface [polypeptide binding]; other site 502558002093 putative anticodon binding site; other site 502558002094 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 502558002095 motif 1; other site 502558002096 active site 502558002097 motif 2; other site 502558002098 motif 3; other site 502558002099 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 502558002100 dimer interface [polypeptide binding]; other site 502558002101 putative tRNA-binding site [nucleotide binding]; other site 502558002102 Clp protease ATP binding subunit; Region: clpC; CHL00095 502558002103 Clp amino terminal domain; Region: Clp_N; pfam02861 502558002104 Clp amino terminal domain; Region: Clp_N; pfam02861 502558002105 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 502558002106 Walker A motif; other site 502558002107 ATP binding site [chemical binding]; other site 502558002108 Walker B motif; other site 502558002109 arginine finger; other site 502558002110 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 502558002111 Walker A motif; other site 502558002112 ATP binding site [chemical binding]; other site 502558002113 Walker B motif; other site 502558002114 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 502558002115 serine O-acetyltransferase; Region: cysE; TIGR01172 502558002116 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 502558002117 trimer interface [polypeptide binding]; other site 502558002118 active site 502558002119 substrate binding site [chemical binding]; other site 502558002120 CoA binding site [chemical binding]; other site 502558002121 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 502558002122 substrate binding site; other site 502558002123 dimer interface; other site 502558002124 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 502558002125 homotrimer interaction site [polypeptide binding]; other site 502558002126 zinc binding site [ion binding]; other site 502558002127 CDP-binding sites; other site 502558002128 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 502558002129 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 502558002130 active site 502558002131 HIGH motif; other site 502558002132 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 502558002133 KMSKS motif; other site 502558002134 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 502558002135 tRNA binding surface [nucleotide binding]; other site 502558002136 anticodon binding site; other site 502558002137 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 502558002138 DNA binding residues [nucleotide binding] 502558002139 dimerization interface [polypeptide binding]; other site 502558002140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002141 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558002142 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 502558002143 Peptidase family U32; Region: Peptidase_U32; cl03113 502558002144 TspO/MBR family; Region: TspO_MBR; cl01379 502558002145 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 502558002146 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 502558002147 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 502558002148 active site 502558002149 putative substrate binding pocket [chemical binding]; other site 502558002150 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 502558002151 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 502558002152 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 502558002153 dimer interface [polypeptide binding]; other site 502558002154 anticodon binding site; other site 502558002155 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 502558002156 homodimer interface [polypeptide binding]; other site 502558002157 motif 1; other site 502558002158 active site 502558002159 motif 2; other site 502558002160 GAD domain; Region: GAD; pfam02938 502558002161 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 502558002162 active site 502558002163 motif 3; other site 502558002164 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 502558002165 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 502558002166 FeS/SAM binding site; other site 502558002167 Helix-turn-helix domains; Region: HTH; cl00088 502558002168 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 502558002169 DNA binding residues [nucleotide binding] 502558002170 dimerization interface [polypeptide binding]; other site 502558002171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002172 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558002173 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 502558002174 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 502558002175 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 502558002176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558002177 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 502558002178 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 502558002179 recombination protein RecR; Reviewed; Region: recR; PRK00076 502558002180 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 502558002181 RecR protein; Region: RecR; pfam02132 502558002182 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 502558002183 putative active site [active] 502558002184 putative metal-binding site [ion binding]; other site 502558002185 tetramer interface [polypeptide binding]; other site 502558002186 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 502558002187 putative RNA binding site [nucleotide binding]; other site 502558002188 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 502558002189 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 502558002190 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 502558002191 DNA binding residues [nucleotide binding] 502558002192 dimerization interface [polypeptide binding]; other site 502558002193 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 502558002194 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558002195 molybdopterin cofactor binding site; other site 502558002196 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558002197 molybdopterin cofactor binding site; other site 502558002198 tetrathionate reductase subunit B; Provisional; Region: PRK14993 502558002199 4Fe-4S binding domain; Region: Fer4; cl02805 502558002200 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 502558002201 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 502558002202 DNA binding residues [nucleotide binding] 502558002203 hypothetical protein; Validated; Region: PRK07121 502558002204 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 502558002205 Walker A motif; other site 502558002206 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 502558002207 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 502558002208 GTP binding site; other site 502558002209 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 502558002210 4Fe-4S binding domain; Region: Fer4; cl02805 502558002211 4Fe-4S binding domain; Region: Fer4; cl02805 502558002212 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 502558002213 Predicted transcriptional regulator [Transcription]; Region: COG1959 502558002214 Helix-turn-helix domains; Region: HTH; cl00088 502558002215 Helix-turn-helix domains; Region: HTH; cl00088 502558002216 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 502558002217 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 502558002218 catalytic residues [active] 502558002219 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 502558002220 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 502558002221 substrate binding pocket [chemical binding]; other site 502558002222 membrane-bound complex binding site; other site 502558002223 hinge residues; other site 502558002224 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 502558002225 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 502558002226 dimer interface [polypeptide binding]; other site 502558002227 conserved gate region; other site 502558002228 putative PBP binding loops; other site 502558002229 ABC-ATPase subunit interface; other site 502558002230 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 502558002231 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 502558002232 Walker A/P-loop; other site 502558002233 ATP binding site [chemical binding]; other site 502558002234 Q-loop/lid; other site 502558002235 ABC transporter signature motif; other site 502558002236 Walker B; other site 502558002237 D-loop; other site 502558002238 H-loop/switch region; other site 502558002239 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 502558002240 putative deacylase active site [active] 502558002241 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 502558002242 catalytic core [active] 502558002243 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 502558002244 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 502558002245 classical (c) SDRs; Region: SDR_c; cd05233 502558002246 NAD(P) binding site [chemical binding]; other site 502558002247 active site 502558002248 H+ Antiporter protein; Region: 2A0121; TIGR00900 502558002249 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 502558002250 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 502558002251 DNA binding residues [nucleotide binding] 502558002252 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558002253 putrescine carbamoyltransferase; Provisional; Region: PRK02255 502558002254 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 502558002255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002256 Amino acid permease; Region: AA_permease_2; pfam13520 502558002257 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 502558002258 agmatine deiminase; Region: agmatine_aguA; TIGR03380 502558002259 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 502558002260 DNA binding residues [nucleotide binding] 502558002261 dimerization interface [polypeptide binding]; other site 502558002262 putrescine carbamoyltransferase; Provisional; Region: PRK02255 502558002263 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 502558002264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002265 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 502558002266 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 502558002267 agmatine deiminase; Region: agmatine_aguA; TIGR03380 502558002268 carbamate kinase; Reviewed; Region: PRK12686 502558002269 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 502558002270 putative substrate binding site [chemical binding]; other site 502558002271 nucleotide binding site [chemical binding]; other site 502558002272 nucleotide binding site [chemical binding]; other site 502558002273 homodimer interface [polypeptide binding]; other site 502558002274 BRO family, N-terminal domain; Region: Bro-N; cl10591 502558002275 putrescine carbamoyltransferase; Provisional; Region: PRK02255 502558002276 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 502558002277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002278 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 502558002279 DNA binding residues [nucleotide binding] 502558002280 dimerization interface [polypeptide binding]; other site 502558002281 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 502558002282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002283 NAD(P) binding site [chemical binding]; other site 502558002284 active site 502558002285 LytTr DNA-binding domain; Region: LytTR; cl04498 502558002286 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 502558002287 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 502558002288 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 502558002289 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 502558002290 non-specific DNA binding site [nucleotide binding]; other site 502558002291 salt bridge; other site 502558002292 sequence-specific DNA binding site [nucleotide binding]; other site 502558002293 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 502558002294 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 502558002295 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 502558002296 conserved cys residue [active] 502558002297 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 502558002298 Predicted transcriptional regulator [Transcription]; Region: COG2378 502558002299 Helix-turn-helix domains; Region: HTH; cl00088 502558002300 WYL domain; Region: WYL; cl14852 502558002301 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 502558002302 DNA binding residues [nucleotide binding] 502558002303 dimerization interface [polypeptide binding]; other site 502558002304 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 502558002305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002306 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558002307 Bacterial SH3 domain; Region: SH3_3; cl02551 502558002308 Bacterial SH3 domain; Region: SH3_3; cl02551 502558002309 Bacterial SH3 domain; Region: SH3_3; cl02551 502558002310 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 502558002311 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 502558002312 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 502558002313 dimer interface [polypeptide binding]; other site 502558002314 motif 1; other site 502558002315 active site 502558002316 motif 2; other site 502558002317 motif 3; other site 502558002318 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 502558002319 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 502558002320 putative tRNA-binding site [nucleotide binding]; other site 502558002321 B3/4 domain; Region: B3_4; cl11458 502558002322 tRNA synthetase B5 domain; Region: B5; cl08394 502558002323 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 502558002324 dimer interface [polypeptide binding]; other site 502558002325 motif 1; other site 502558002326 motif 3; other site 502558002327 motif 2; other site 502558002328 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 502558002329 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 502558002330 methionine aminopeptidase; Provisional; Region: PRK12318 502558002331 SEC-C motif; Region: SEC-C; pfam02810 502558002332 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 502558002333 active site 502558002334 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 502558002335 domain_subunit interface; other site 502558002336 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 502558002337 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 502558002338 putative inner membrane protein translocase component YidC; Provisional; Region: PRK02654 502558002339 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 502558002340 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 502558002341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002342 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 502558002343 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 502558002344 heterotetramer interface [polypeptide binding]; other site 502558002345 active site pocket [active] 502558002346 cleavage site 502558002347 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 502558002348 feedback inhibition sensing region; other site 502558002349 homohexameric interface [polypeptide binding]; other site 502558002350 nucleotide binding site [chemical binding]; other site 502558002351 N-acetyl-L-glutamate binding site [chemical binding]; other site 502558002352 acetylornithine aminotransferase; Provisional; Region: PRK02627 502558002353 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 502558002354 inhibitor-cofactor binding pocket; inhibition site 502558002355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558002356 catalytic residue [active] 502558002357 Helix-turn-helix domains; Region: HTH; cl00088 502558002358 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 502558002359 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558002360 Arginine repressor [Transcription]; Region: ArgR; COG1438 502558002361 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 502558002362 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 502558002363 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 502558002364 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 502558002365 ANP binding site [chemical binding]; other site 502558002366 Substrate Binding Site II [chemical binding]; other site 502558002367 Substrate Binding Site I [chemical binding]; other site 502558002368 argininosuccinate lyase; Provisional; Region: PRK00855 502558002369 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 502558002370 active sites [active] 502558002371 tetramer interface [polypeptide binding]; other site 502558002372 Transglycosylase; Region: Transgly; cl07896 502558002373 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 502558002374 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 502558002375 Transglycosylase; Region: Transgly; cl07896 502558002376 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 502558002377 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 502558002378 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 502558002379 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 502558002380 Peptidase family U32; Region: Peptidase_U32; cl03113 502558002381 Collagenase; Region: DUF3656; pfam12392 502558002382 Peptidase family U32; Region: Peptidase_U32; cl03113 502558002383 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 502558002384 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 502558002385 active site 502558002386 HIGH motif; other site 502558002387 dimer interface [polypeptide binding]; other site 502558002388 KMSKS motif; other site 502558002389 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 502558002390 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 502558002391 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 502558002392 DNA binding residues [nucleotide binding] 502558002393 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 502558002394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002395 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 502558002396 NAD(P) binding site [chemical binding]; other site 502558002397 homodimer interface [polypeptide binding]; other site 502558002398 substrate binding site [chemical binding]; other site 502558002399 active site 502558002400 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 502558002401 active site 502558002402 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 502558002403 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 502558002404 active site 502558002405 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 502558002406 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 502558002407 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 502558002408 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 502558002409 putative sugar binding sites [chemical binding]; other site 502558002410 Q-X-W motif; other site 502558002411 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 502558002412 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 502558002413 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 502558002414 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 502558002415 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 502558002416 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 502558002417 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 502558002418 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 502558002419 ATP-grasp domain; Region: ATP-grasp_4; cl03087 502558002420 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 502558002421 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 502558002422 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 502558002423 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558002424 pseudaminic acid synthase; Region: PseI; TIGR03586 502558002425 NeuB family; Region: NeuB; cl00496 502558002426 SAF domain; Region: SAF; cl00555 502558002427 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 502558002428 ligand binding site; other site 502558002429 tetramer interface; other site 502558002430 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 502558002431 active site 502558002432 catalytic residues [active] 502558002433 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 502558002434 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 502558002435 active site 502558002436 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 502558002437 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 502558002438 putative sugar binding sites [chemical binding]; other site 502558002439 Q-X-W motif; other site 502558002440 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 502558002441 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 502558002442 putative sugar binding sites [chemical binding]; other site 502558002443 Q-X-W motif; other site 502558002444 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 502558002445 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 502558002446 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 502558002447 putative sugar binding sites [chemical binding]; other site 502558002448 Q-X-W motif; other site 502558002449 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 502558002450 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 502558002451 NAD(P) binding site [chemical binding]; other site 502558002452 homodimer interface [polypeptide binding]; other site 502558002453 substrate binding site [chemical binding]; other site 502558002454 active site 502558002455 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 502558002456 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 502558002457 inhibitor-cofactor binding pocket; inhibition site 502558002458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558002459 catalytic residue [active] 502558002460 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 502558002461 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 502558002462 active site 502558002463 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 502558002464 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 502558002465 active site 502558002466 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 502558002467 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 502558002468 Ligand binding site; other site 502558002469 Putative Catalytic site; other site 502558002470 DXD motif; other site 502558002471 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 502558002472 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 502558002473 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 502558002474 substrate binding site; other site 502558002475 tetramer interface; other site 502558002476 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 502558002477 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 502558002478 NADP binding site [chemical binding]; other site 502558002479 active site 502558002480 putative substrate binding site [chemical binding]; other site 502558002481 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 502558002482 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 502558002483 NAD binding site [chemical binding]; other site 502558002484 substrate binding site [chemical binding]; other site 502558002485 homodimer interface [polypeptide binding]; other site 502558002486 active site 502558002487 Cupin domain; Region: Cupin_2; cl09118 502558002488 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 502558002489 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 502558002490 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 502558002491 Walker A/P-loop; other site 502558002492 ATP binding site [chemical binding]; other site 502558002493 Q-loop/lid; other site 502558002494 ABC transporter signature motif; other site 502558002495 Walker B; other site 502558002496 D-loop; other site 502558002497 H-loop/switch region; other site 502558002498 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 502558002499 ABC-2 type transporter; Region: ABC2_membrane; cl11417 502558002500 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 502558002501 active site 502558002502 Helix-turn-helix domains; Region: HTH; cl00088 502558002503 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 502558002504 active site 502558002505 metal-binding site 502558002506 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 502558002507 active site 502558002508 ATP binding site [chemical binding]; other site 502558002509 substrate binding site [chemical binding]; other site 502558002510 dimer interface [polypeptide binding]; other site 502558002511 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 502558002512 Spore germination protein; Region: Spore_permease; cl15802 502558002513 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 502558002514 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 502558002515 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 502558002516 Sulfatase; Region: Sulfatase; cl10460 502558002517 Bacterial sugar transferase; Region: Bac_transf; cl00939 502558002518 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 502558002519 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 502558002520 inhibitor-cofactor binding pocket; inhibition site 502558002521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558002522 catalytic residue [active] 502558002523 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 502558002524 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 502558002525 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 502558002526 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 502558002527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558002528 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 502558002529 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 502558002530 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 502558002531 RNA/DNA hybrid binding site [nucleotide binding]; other site 502558002532 active site 502558002533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 502558002534 NlpC/P60 family; Region: NLPC_P60; cl11438 502558002535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 502558002536 NlpC/P60 family; Region: NLPC_P60; cl11438 502558002537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 502558002538 hypothetical protein; Provisional; Region: PRK13663 502558002539 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 502558002540 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 502558002541 active site 502558002542 Int/Topo IB signature motif; other site 502558002543 MraZ protein; Region: MraZ; pfam02381 502558002544 MraZ protein; Region: MraZ; pfam02381 502558002545 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 502558002546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002547 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 502558002548 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 502558002549 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 502558002550 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 502558002551 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 502558002552 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 502558002553 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 502558002554 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 502558002555 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 502558002556 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 502558002557 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 502558002558 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 502558002559 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 502558002560 Mg++ binding site [ion binding]; other site 502558002561 putative catalytic motif [active] 502558002562 putative substrate binding site [chemical binding]; other site 502558002563 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 502558002564 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 502558002565 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 502558002566 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 502558002567 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 502558002568 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 502558002569 active site 502558002570 homodimer interface [polypeptide binding]; other site 502558002571 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 502558002572 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 502558002573 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 502558002574 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 502558002575 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 502558002576 FAD binding domain; Region: FAD_binding_4; pfam01565 502558002577 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 502558002578 cell division protein FtsQ; Provisional; Region: PRK05529 502558002579 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 502558002580 cell division protein FtsZ; Validated; Region: PRK09330 502558002581 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 502558002582 nucleotide binding site [chemical binding]; other site 502558002583 SulA interaction site; other site 502558002584 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 502558002585 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 502558002586 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 502558002587 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 502558002588 catalytic residue [active] 502558002589 Protein of unknown function (DUF552); Region: DUF552; cl00775 502558002590 YGGT family; Region: YGGT; cl00508 502558002591 DivIVA protein; Region: DivIVA; pfam05103 502558002592 DivIVA domain; Region: DivI1A_domain; TIGR03544 502558002593 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 502558002594 Thiamine pyrophosphokinase; Region: TPK; cd07995 502558002595 active site 502558002596 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 502558002597 dimerization interface [polypeptide binding]; other site 502558002598 thiamine binding site [chemical binding]; other site 502558002599 ThiC family; Region: ThiC; cl08031 502558002600 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 502558002601 substrate binding site [chemical binding]; other site 502558002602 multimerization interface [polypeptide binding]; other site 502558002603 ATP binding site [chemical binding]; other site 502558002604 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 502558002605 thiamine phosphate binding site [chemical binding]; other site 502558002606 active site 502558002607 pyrophosphate binding site [ion binding]; other site 502558002608 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 502558002609 dimer interface [polypeptide binding]; other site 502558002610 substrate binding site [chemical binding]; other site 502558002611 ATP binding site [chemical binding]; other site 502558002612 Cache domain; Region: Cache_1; pfam02743 502558002613 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 502558002614 dimerization interface [polypeptide binding]; other site 502558002615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558002616 metal binding site [ion binding]; metal-binding site 502558002617 active site 502558002618 I-site; other site 502558002619 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 502558002620 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 502558002621 active site 502558002622 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 502558002623 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 502558002624 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 502558002625 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 502558002626 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 502558002627 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 502558002628 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 502558002629 active site 502558002630 NTP binding site [chemical binding]; other site 502558002631 metal binding triad [ion binding]; metal-binding site 502558002632 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 502558002633 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 502558002634 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 502558002635 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 502558002636 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 502558002637 active site 502558002638 trimer interface [polypeptide binding]; other site 502558002639 allosteric site; other site 502558002640 active site lid [active] 502558002641 hexamer (dimer of trimers) interface [polypeptide binding]; other site 502558002642 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 502558002643 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 502558002644 active site 502558002645 dimer interface [polypeptide binding]; other site 502558002646 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 502558002647 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 502558002648 active site 502558002649 catalytic triad [active] 502558002650 dimer interface [polypeptide binding]; other site 502558002651 Cadherin repeat-like domain; Region: CA_like; cl15786 502558002652 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 502558002653 DNA binding residues [nucleotide binding] 502558002654 dimerization interface [polypeptide binding]; other site 502558002655 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 502558002656 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 502558002657 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 502558002658 dimerization interface [polypeptide binding]; other site 502558002659 putative active cleft [active] 502558002660 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 502558002661 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 502558002662 inhibitor site; inhibition site 502558002663 active site 502558002664 dimer interface [polypeptide binding]; other site 502558002665 catalytic residue [active] 502558002666 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 502558002667 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 502558002668 Walker A/P-loop; other site 502558002669 ATP binding site [chemical binding]; other site 502558002670 Q-loop/lid; other site 502558002671 ABC transporter signature motif; other site 502558002672 Walker B; other site 502558002673 D-loop; other site 502558002674 H-loop/switch region; other site 502558002675 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 502558002676 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 502558002677 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 502558002678 dimer interface [polypeptide binding]; other site 502558002679 conserved gate region; other site 502558002680 putative PBP binding loops; other site 502558002681 ABC-ATPase subunit interface; other site 502558002682 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 502558002683 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 502558002684 Walker A/P-loop; other site 502558002685 ATP binding site [chemical binding]; other site 502558002686 Q-loop/lid; other site 502558002687 ABC transporter signature motif; other site 502558002688 Walker B; other site 502558002689 D-loop; other site 502558002690 H-loop/switch region; other site 502558002691 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 502558002692 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 502558002693 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 502558002694 dimer interface [polypeptide binding]; other site 502558002695 conserved gate region; other site 502558002696 putative PBP binding loops; other site 502558002697 ABC-ATPase subunit interface; other site 502558002698 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 502558002699 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 502558002700 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 502558002701 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 502558002702 dimer interface [polypeptide binding]; other site 502558002703 PYR/PP interface [polypeptide binding]; other site 502558002704 TPP binding site [chemical binding]; other site 502558002705 substrate binding site [chemical binding]; other site 502558002706 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 502558002707 Domain of unknown function; Region: EKR; cl11037 502558002708 4Fe-4S binding domain; Region: Fer4; cl02805 502558002709 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 502558002710 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 502558002711 TPP-binding site [chemical binding]; other site 502558002712 dimer interface [polypeptide binding]; other site 502558002713 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 502558002714 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 502558002715 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 502558002716 RelB antitoxin; Region: RelB; cl01171 502558002717 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 502558002718 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 502558002719 YokU-like protein; Region: YokU; cl15819 502558002720 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 502558002721 non-specific DNA binding site [nucleotide binding]; other site 502558002722 salt bridge; other site 502558002723 sequence-specific DNA binding site [nucleotide binding]; other site 502558002724 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 502558002725 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558002726 molybdopterin cofactor binding site; other site 502558002727 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558002728 molybdopterin cofactor binding site; other site 502558002729 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 502558002730 4Fe-4S binding domain; Region: Fer4; cl02805 502558002731 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 502558002732 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 502558002733 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 502558002734 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 502558002735 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 502558002736 dimer interface [polypeptide binding]; other site 502558002737 phosphorylation site [posttranslational modification] 502558002738 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 502558002739 ATP binding site [chemical binding]; other site 502558002740 Mg2+ binding site [ion binding]; other site 502558002741 G-X-G motif; other site 502558002742 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558002743 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 502558002744 active site 502558002745 phosphorylation site [posttranslational modification] 502558002746 intermolecular recognition site; other site 502558002747 dimerization interface [polypeptide binding]; other site 502558002748 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 502558002749 DNA binding site [nucleotide binding] 502558002750 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 502558002751 FeS/SAM binding site; other site 502558002752 Radical SAM superfamily; Region: Radical_SAM; pfam04055 502558002753 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 502558002754 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 502558002755 phosphate binding site [ion binding]; other site 502558002756 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 502558002757 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 502558002758 DNA binding residues [nucleotide binding] 502558002759 dimerization interface [polypeptide binding]; other site 502558002760 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 502558002761 classical (c) SDRs; Region: SDR_c; cd05233 502558002762 NAD(P) binding site [chemical binding]; other site 502558002763 active site 502558002764 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 502558002765 active site 502558002766 metal binding site [ion binding]; metal-binding site 502558002767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558002768 Helix-turn-helix domains; Region: HTH; cl00088 502558002769 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; cd05466 502558002770 dimerization interface [polypeptide binding]; other site 502558002771 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 502558002772 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 502558002773 catalytic residue [active] 502558002774 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 502558002775 putative substrate translocation pore; other site 502558002776 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558002777 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 502558002778 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558002779 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 502558002780 enoyl-CoA hydratase; Provisional; Region: PRK08252 502558002781 substrate binding site [chemical binding]; other site 502558002782 oxyanion hole (OAH) forming residues; other site 502558002783 trimer interface [polypeptide binding]; other site 502558002784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558002785 Helix-turn-helix domains; Region: HTH; cl00088 502558002786 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; cd05466 502558002787 dimerization interface [polypeptide binding]; other site 502558002788 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 502558002789 substrate binding site [chemical binding]; other site 502558002790 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 502558002791 putative active site [active] 502558002792 elongation factor Tu; Reviewed; Region: PRK00049 502558002793 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 502558002794 G1 box; other site 502558002795 GEF interaction site [polypeptide binding]; other site 502558002796 GTP/Mg2+ binding site [chemical binding]; other site 502558002797 Switch I region; other site 502558002798 G2 box; other site 502558002799 G3 box; other site 502558002800 Switch II region; other site 502558002801 G4 box; other site 502558002802 G5 box; other site 502558002803 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 502558002804 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 502558002805 Antibiotic Binding Site [chemical binding]; other site 502558002806 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 502558002807 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 502558002808 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 502558002809 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 502558002810 putative homodimer interface [polypeptide binding]; other site 502558002811 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 502558002812 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 502558002813 23S rRNA interface [nucleotide binding]; other site 502558002814 L7/L12 interface [polypeptide binding]; other site 502558002815 putative thiostrepton binding site; other site 502558002816 L25 interface [polypeptide binding]; other site 502558002817 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 502558002818 mRNA/rRNA interface [nucleotide binding]; other site 502558002819 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 502558002820 active site 502558002821 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 502558002822 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 502558002823 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 502558002824 Predicted GTPase [General function prediction only]; Region: COG0218 502558002825 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 502558002826 G1 box; other site 502558002827 GTP/Mg2+ binding site [chemical binding]; other site 502558002828 Switch I region; other site 502558002829 G2 box; other site 502558002830 G3 box; other site 502558002831 Switch II region; other site 502558002832 G4 box; other site 502558002833 G5 box; other site 502558002834 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 502558002835 rRNA interaction site [nucleotide binding]; other site 502558002836 S8 interaction site; other site 502558002837 putative laminin-1 binding site; other site 502558002838 elongation factor Ts; Provisional; Region: tsf; PRK09377 502558002839 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 502558002840 Elongation factor TS; Region: EF_TS; pfam00889 502558002841 Elongation factor TS; Region: EF_TS; pfam00889 502558002842 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 502558002843 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 502558002844 hinge; other site 502558002845 active site 502558002846 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 502558002847 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 502558002848 NifU-like domain; Region: NifU; cl00484 502558002849 CpXC protein; Region: CpXC; pfam14353 502558002850 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 502558002851 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cl00018 502558002852 Desulfoferrodoxin [Energy production and conversion]; Region: COG2033 502558002853 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 502558002854 non-heme iron binding site [ion binding]; other site 502558002855 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 502558002856 intersubunit interface [polypeptide binding]; other site 502558002857 active site 502558002858 Zn2+ binding site [ion binding]; other site 502558002859 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 502558002860 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 502558002861 Flavin Reductases; Region: FlaRed; cl00801 502558002862 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 502558002863 Rubredoxin [Energy production and conversion]; Region: COG1773 502558002864 iron binding site [ion binding]; other site 502558002865 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 502558002866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002867 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 502558002868 Thymidylate synthase complementing protein; Region: Thy1; cl03630 502558002869 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 502558002870 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 502558002871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558002872 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 502558002873 Walker A/P-loop; other site 502558002874 ATP binding site [chemical binding]; other site 502558002875 Q-loop/lid; other site 502558002876 ABC transporter signature motif; other site 502558002877 Walker B; other site 502558002878 D-loop; other site 502558002879 H-loop/switch region; other site 502558002880 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 502558002881 ABC-2 type transporter; Region: ABC2_membrane; cl11417 502558002882 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 502558002883 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 502558002884 Walker A/P-loop; other site 502558002885 ATP binding site [chemical binding]; other site 502558002886 Q-loop/lid; other site 502558002887 ABC transporter signature motif; other site 502558002888 Walker B; other site 502558002889 D-loop; other site 502558002890 H-loop/switch region; other site 502558002891 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 502558002892 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 502558002893 substrate binding pocket [chemical binding]; other site 502558002894 membrane-bound complex binding site; other site 502558002895 hinge residues; other site 502558002896 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 502558002897 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 502558002898 dimer interface [polypeptide binding]; other site 502558002899 conserved gate region; other site 502558002900 putative PBP binding loops; other site 502558002901 ABC-ATPase subunit interface; other site 502558002902 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 502558002903 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 502558002904 dimer interface [polypeptide binding]; other site 502558002905 conserved gate region; other site 502558002906 putative PBP binding loops; other site 502558002907 ABC-ATPase subunit interface; other site 502558002908 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 502558002909 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 502558002910 non-specific DNA binding site [nucleotide binding]; other site 502558002911 salt bridge; other site 502558002912 sequence-specific DNA binding site [nucleotide binding]; other site 502558002913 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 502558002914 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 502558002915 DNA topoisomerase I; Validated; Region: PRK07219 502558002916 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 502558002917 active site 502558002918 putative interdomain interaction site [polypeptide binding]; other site 502558002919 putative metal-binding site [ion binding]; other site 502558002920 putative nucleotide binding site [chemical binding]; other site 502558002921 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 502558002922 domain I; other site 502558002923 DNA binding groove [nucleotide binding] 502558002924 phosphate binding site [ion binding]; other site 502558002925 domain II; other site 502558002926 domain III; other site 502558002927 nucleotide binding site [chemical binding]; other site 502558002928 catalytic site [active] 502558002929 domain IV; other site 502558002930 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 502558002931 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 502558002932 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 502558002933 transmembrane helices; other site 502558002934 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 502558002935 Fumarase C-terminus; Region: Fumerase_C; cl00795 502558002936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558002937 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 502558002938 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 502558002939 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 502558002940 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 502558002941 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 502558002942 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 502558002943 Cysteine-rich domain; Region: CCG; pfam02754 502558002944 Cysteine-rich domain; Region: CCG; pfam02754 502558002945 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 502558002946 Helix-turn-helix domains; Region: HTH; cl00088 502558002947 Malic enzyme, N-terminal domain; Region: malic; pfam00390 502558002948 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 502558002949 putative NAD(P) binding site [chemical binding]; other site 502558002950 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 502558002951 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 502558002952 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 502558002953 FMN binding site [chemical binding]; other site 502558002954 dimer interface [polypeptide binding]; other site 502558002955 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 502558002956 Fumarase C-terminus; Region: Fumerase_C; cl00795 502558002957 thymidylate kinase; Validated; Region: tmk; PRK00698 502558002958 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 502558002959 TMP-binding site; other site 502558002960 ATP-binding site [chemical binding]; other site 502558002961 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 502558002962 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558002963 PSP1 C-terminal conserved region; Region: PSP1; cl00770 502558002964 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 502558002965 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 502558002966 active site 502558002967 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 502558002968 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 502558002969 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 502558002970 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 502558002971 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 502558002972 FeS/SAM binding site; other site 502558002973 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 502558002974 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 502558002975 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 502558002976 FeS/SAM binding site; other site 502558002977 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 502558002978 catalytic residues [active] 502558002979 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 502558002980 kelch-like protein; Provisional; Region: PHA03098 502558002981 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 502558002982 putative active site [active] 502558002983 catalytic triad [active] 502558002984 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 502558002985 putative active site [active] 502558002986 catalytic triad [active] 502558002987 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 502558002988 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 502558002989 active site 502558002990 catalytic residues [active] 502558002991 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 502558002992 catalytic residues [active] 502558002993 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 502558002994 CrcB-like protein; Region: CRCB; cl09114 502558002995 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 502558002996 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 502558002997 putative FMN binding site [chemical binding]; other site 502558002998 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 502558002999 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 502558003000 non-specific DNA binding site [nucleotide binding]; other site 502558003001 salt bridge; other site 502558003002 sequence-specific DNA binding site [nucleotide binding]; other site 502558003003 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 502558003004 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 502558003005 Walker A/P-loop; other site 502558003006 ATP binding site [chemical binding]; other site 502558003007 Q-loop/lid; other site 502558003008 ABC transporter signature motif; other site 502558003009 Walker B; other site 502558003010 D-loop; other site 502558003011 H-loop/switch region; other site 502558003012 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 502558003013 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 502558003014 histone acetyltransferase, ELP3 family; Region: ELP3; TIGR01211 502558003015 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558003016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003017 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 502558003018 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 502558003019 iron-sulfur cluster [ion binding]; other site 502558003020 [2Fe-2S] cluster binding site [ion binding]; other site 502558003021 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 502558003022 hydrophobic ligand binding site; other site 502558003023 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 502558003024 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 502558003025 4Fe-4S binding domain; Region: Fer4; cl02805 502558003026 4Fe-4S binding domain; Region: Fer4; cl02805 502558003027 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 502558003028 active site 502558003029 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 502558003030 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 502558003031 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 502558003032 active site 502558003033 catalytic tetrad [active] 502558003034 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 502558003035 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 502558003036 putative substrate translocation pore; other site 502558003037 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558003038 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558003039 Helix-turn-helix domains; Region: HTH; cl00088 502558003040 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; cd05466 502558003041 dimerization interface [polypeptide binding]; other site 502558003042 Domain of unknown function (DUF362); Region: DUF362; pfam04015 502558003043 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 502558003044 non-specific DNA binding site [nucleotide binding]; other site 502558003045 salt bridge; other site 502558003046 sequence-specific DNA binding site [nucleotide binding]; other site 502558003047 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 502558003048 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 502558003049 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 502558003050 active site 502558003051 catalytic tetrad [active] 502558003052 Cupin domain; Region: Cupin_2; cl09118 502558003053 Helix-turn-helix domains; Region: HTH; cl00088 502558003054 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 502558003055 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 502558003056 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 502558003057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003058 oligomerization interface [polypeptide binding]; other site 502558003059 active site 502558003060 NAD+ binding site [chemical binding]; other site 502558003061 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 502558003062 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 502558003063 DXD motif; other site 502558003064 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 502558003065 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 502558003066 active site 502558003067 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 502558003068 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 502558003069 substrate binding pocket [chemical binding]; other site 502558003070 membrane-bound complex binding site; other site 502558003071 hinge residues; other site 502558003072 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558003073 Helix-turn-helix domains; Region: HTH; cl00088 502558003074 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 502558003075 dimerization interface [polypeptide binding]; other site 502558003076 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 502558003077 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 502558003078 Ligand Binding Site [chemical binding]; other site 502558003079 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 502558003080 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 502558003081 Ligand Binding Site [chemical binding]; other site 502558003082 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 502558003083 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 502558003084 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558003085 active site 502558003086 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 502558003087 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 502558003088 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558003089 active site 502558003090 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 502558003091 AIR carboxylase; Region: AIRC; cl00310 502558003092 Protein of unknown function DUF111; Region: DUF111; cl03398 502558003093 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 502558003094 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 502558003095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558003096 Walker A/P-loop; other site 502558003097 ATP binding site [chemical binding]; other site 502558003098 Q-loop/lid; other site 502558003099 ABC transporter signature motif; other site 502558003100 Walker B; other site 502558003101 D-loop; other site 502558003102 H-loop/switch region; other site 502558003103 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 502558003104 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 502558003105 Peptidase M16C associated; Region: M16C_assoc; pfam08367 502558003106 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 502558003107 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 502558003108 Walker A/P-loop; other site 502558003109 ATP binding site [chemical binding]; other site 502558003110 Q-loop/lid; other site 502558003111 ABC transporter signature motif; other site 502558003112 Walker B; other site 502558003113 D-loop; other site 502558003114 H-loop/switch region; other site 502558003115 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 502558003116 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 502558003117 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 502558003118 Walker A/P-loop; other site 502558003119 ATP binding site [chemical binding]; other site 502558003120 Q-loop/lid; other site 502558003121 ABC transporter signature motif; other site 502558003122 Walker B; other site 502558003123 D-loop; other site 502558003124 H-loop/switch region; other site 502558003125 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 502558003126 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 502558003127 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 502558003128 dimer interface [polypeptide binding]; other site 502558003129 conserved gate region; other site 502558003130 ABC-ATPase subunit interface; other site 502558003131 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 502558003132 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 502558003133 putative PBP binding loops; other site 502558003134 dimer interface [polypeptide binding]; other site 502558003135 ABC-ATPase subunit interface; other site 502558003136 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 502558003137 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 502558003138 peptide binding site [polypeptide binding]; other site 502558003139 DAK2 domain; Region: Dak2; cl03685 502558003140 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 502558003141 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 502558003142 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 502558003143 intersubunit interface [polypeptide binding]; other site 502558003144 active site 502558003145 zinc binding site [ion binding]; other site 502558003146 Na+ binding site [ion binding]; other site 502558003147 pyruvate kinase; Provisional; Region: PRK05826 502558003148 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 502558003149 domain interfaces; other site 502558003150 active site 502558003151 Protein of unknown function (DUF454); Region: DUF454; cl01063 502558003152 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 502558003153 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 502558003154 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 502558003155 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 502558003156 ribosomal protein L20; Region: rpl20; CHL00068 502558003157 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 502558003158 23S rRNA binding site [nucleotide binding]; other site 502558003159 L21 binding site [polypeptide binding]; other site 502558003160 L13 binding site [polypeptide binding]; other site 502558003161 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 502558003162 Predicted dehydrogenase [General function prediction only]; Region: COG0579 502558003163 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 502558003164 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 502558003165 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 502558003166 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558003167 helicase 45; Provisional; Region: PTZ00424 502558003168 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 502558003169 ATP binding site [chemical binding]; other site 502558003170 Mg++ binding site [ion binding]; other site 502558003171 motif III; other site 502558003172 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 502558003173 nucleotide binding region [chemical binding]; other site 502558003174 ATP-binding site [chemical binding]; other site 502558003175 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 502558003176 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 502558003177 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 502558003178 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 502558003179 Ligand binding site; other site 502558003180 Putative Catalytic site; other site 502558003181 DXD motif; other site 502558003182 GtrA-like protein; Region: GtrA; cl00971 502558003183 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 502558003184 TRAM domain; Region: TRAM; cl01282 502558003185 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 502558003186 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 502558003187 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 502558003188 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 502558003189 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 502558003190 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 502558003191 F0F1 ATP synthase subunit B; Validated; Region: PRK07352 502558003192 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 502558003193 P-loop; other site 502558003194 Magnesium ion binding site [ion binding]; other site 502558003195 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 502558003196 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 502558003197 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 502558003198 ATP binding site [chemical binding]; other site 502558003199 putative Mg++ binding site [ion binding]; other site 502558003200 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 502558003201 HsdM N-terminal domain; Region: HsdM_N; pfam12161 502558003202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003203 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 502558003204 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 502558003205 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 502558003206 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 502558003207 catalytic residues [active] 502558003208 catalytic nucleophile [active] 502558003209 Recombinase; Region: Recombinase; pfam07508 502558003210 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 502558003211 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 502558003212 transmembrane helices; other site 502558003213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558003214 Helix-turn-helix domains; Region: HTH; cl00088 502558003215 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 502558003216 dimerization interface [polypeptide binding]; other site 502558003217 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 502558003218 classical (c) SDRs; Region: SDR_c; cd05233 502558003219 NAD(P) binding site [chemical binding]; other site 502558003220 active site 502558003221 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 502558003222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003223 NAD(P) binding site [chemical binding]; other site 502558003224 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 502558003225 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558003226 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 502558003227 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558003228 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 502558003229 active site 502558003230 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 502558003231 binding surface 502558003232 TPR motif; other site 502558003233 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 502558003234 binding surface 502558003235 TPR motif; other site 502558003236 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 502558003237 active site 502558003238 multimer interface [polypeptide binding]; other site 502558003239 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 502558003240 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 502558003241 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 502558003242 FAD binding pocket [chemical binding]; other site 502558003243 FAD binding motif [chemical binding]; other site 502558003244 phosphate binding motif [ion binding]; other site 502558003245 beta-alpha-beta structure motif; other site 502558003246 NAD binding pocket [chemical binding]; other site 502558003247 Iron coordination center [ion binding]; other site 502558003248 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 502558003249 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 502558003250 rod shape-determining protein MreB; Provisional; Region: PRK13927 502558003251 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 502558003252 ATP binding site [chemical binding]; other site 502558003253 Cell division protein FtsA; Region: FtsA; cl11496 502558003254 rod shape-determining protein MreC; Provisional; Region: PRK13922 502558003255 rod shape-determining protein MreC; Region: MreC; pfam04085 502558003256 rod shape-determining protein MreD; Region: MreD; cl01087 502558003257 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 502558003258 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 502558003259 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 502558003260 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 502558003261 Domain of unknown function (DUF697); Region: DUF697; cl12064 502558003262 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 502558003263 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 502558003264 B12 binding site [chemical binding]; other site 502558003265 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 502558003266 FeS/SAM binding site; other site 502558003267 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 502558003268 Transcriptional regulators [Transcription]; Region: MarR; COG1846 502558003269 Helix-turn-helix domains; Region: HTH; cl00088 502558003270 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558003271 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558003272 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 502558003273 Walker A/P-loop; other site 502558003274 ATP binding site [chemical binding]; other site 502558003275 Q-loop/lid; other site 502558003276 ABC transporter signature motif; other site 502558003277 Walker B; other site 502558003278 D-loop; other site 502558003279 H-loop/switch region; other site 502558003280 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558003281 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558003282 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558003283 Walker A/P-loop; other site 502558003284 ATP binding site [chemical binding]; other site 502558003285 Q-loop/lid; other site 502558003286 ABC transporter signature motif; other site 502558003287 Walker B; other site 502558003288 D-loop; other site 502558003289 H-loop/switch region; other site 502558003290 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 502558003291 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 502558003292 Predicted transcriptional regulator [Transcription]; Region: COG1959 502558003293 Helix-turn-helix domains; Region: HTH; cl00088 502558003294 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 502558003295 endonuclease III; Region: ENDO3c; smart00478 502558003296 minor groove reading motif; other site 502558003297 helix-hairpin-helix signature motif; other site 502558003298 substrate binding pocket [chemical binding]; other site 502558003299 active site 502558003300 Domain of unknown function DUF; Region: DUF204; pfam02659 502558003301 Domain of unknown function DUF; Region: DUF204; pfam02659 502558003302 prephenate dehydratase; Provisional; Region: PRK11898 502558003303 Prephenate dehydratase; Region: PDT; pfam00800 502558003304 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 502558003305 putative L-Phe binding site [chemical binding]; other site 502558003306 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 502558003307 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 502558003308 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 502558003309 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 502558003310 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 502558003311 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 502558003312 nickel binding site [ion binding]; other site 502558003313 Protein of unknown function, DUF488; Region: DUF488; cl01246 502558003314 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 502558003315 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 502558003316 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 502558003317 putative active site [active] 502558003318 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 502558003319 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 502558003320 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 502558003321 minor groove reading motif; other site 502558003322 helix-hairpin-helix signature motif; other site 502558003323 substrate binding pocket [chemical binding]; other site 502558003324 active site 502558003325 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 502558003326 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 502558003327 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 502558003328 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 502558003329 ATP binding site [chemical binding]; other site 502558003330 putative Mg++ binding site [ion binding]; other site 502558003331 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 502558003332 nucleotide binding region [chemical binding]; other site 502558003333 ATP-binding site [chemical binding]; other site 502558003334 TRCF domain; Region: TRCF; cl04088 502558003335 EamA-like transporter family; Region: EamA; cl01037 502558003336 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 502558003337 active site 502558003338 dimer interface [polypeptide binding]; other site 502558003339 Helix-turn-helix domains; Region: HTH; cl00088 502558003340 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 502558003341 MatE; Region: MatE; cl10513 502558003342 MatE; Region: MatE; cl10513 502558003343 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 502558003344 CoenzymeA binding site [chemical binding]; other site 502558003345 subunit interaction site [polypeptide binding]; other site 502558003346 PHB binding site; other site 502558003347 pyuvate ferredoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09624 502558003348 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558003349 4Fe-4S binding domain; Region: Fer4; cl02805 502558003350 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 502558003351 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 502558003352 HIGH motif; other site 502558003353 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 502558003354 active site 502558003355 KMSKS motif; other site 502558003356 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 502558003357 S-adenosylmethionine synthetase; Validated; Region: PRK05250 502558003358 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 502558003359 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 502558003360 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 502558003361 primosome assembly protein PriA; Validated; Region: PRK05580 502558003362 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 502558003363 ATP binding site [chemical binding]; other site 502558003364 putative Mg++ binding site [ion binding]; other site 502558003365 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558003366 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 502558003367 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 502558003368 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 502558003369 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 502558003370 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 502558003371 DNA binding residues [nucleotide binding] 502558003372 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 502558003373 THUMP domain; Region: THUMP; cl12076 502558003374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003375 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 502558003376 Predicted membrane protein [Function unknown]; Region: COG2364 502558003377 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 502558003378 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 502558003379 active site 502558003380 HIGH motif; other site 502558003381 dimer interface [polypeptide binding]; other site 502558003382 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 502558003383 KMSKS motif; other site 502558003384 ribosome maturation protein RimP; Reviewed; Region: PRK00092 502558003385 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 502558003386 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 502558003387 Sm1 motif; other site 502558003388 predicted subunit interaction site [polypeptide binding]; other site 502558003389 RNA binding pocket [nucleotide binding]; other site 502558003390 Sm2 motif; other site 502558003391 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 502558003392 NusA N-terminal domain; Region: NusA_N; pfam08529 502558003393 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 502558003394 RNA binding site [nucleotide binding]; other site 502558003395 homodimer interface [polypeptide binding]; other site 502558003396 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 502558003397 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 502558003398 G-X-X-G motif; other site 502558003399 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 502558003400 putative RNA binding cleft [nucleotide binding]; other site 502558003401 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 502558003402 translation initiation factor IF-2; Region: IF-2; TIGR00487 502558003403 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 502558003404 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 502558003405 G1 box; other site 502558003406 putative GEF interaction site [polypeptide binding]; other site 502558003407 GTP/Mg2+ binding site [chemical binding]; other site 502558003408 Switch I region; other site 502558003409 G2 box; other site 502558003410 G3 box; other site 502558003411 Switch II region; other site 502558003412 G4 box; other site 502558003413 G5 box; other site 502558003414 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 502558003415 Translation-initiation factor 2; Region: IF-2; pfam11987 502558003416 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 502558003417 Ribosome-binding factor A; Region: RBFA; cl00542 502558003418 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 502558003419 DHH family; Region: DHH; pfam01368 502558003420 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 502558003421 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 502558003422 RNA binding site [nucleotide binding]; other site 502558003423 active site 502558003424 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 502558003425 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 502558003426 active site 502558003427 Riboflavin kinase; Region: Flavokinase; cl03312 502558003428 Sulfatase; Region: Sulfatase; cl10460 502558003429 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 502558003430 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 502558003431 glutamate dehydrogenase; Provisional; Region: PRK09414 502558003432 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 502558003433 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 502558003434 NAD(P) binding site [chemical binding]; other site 502558003435 benzoate transport; Region: 2A0115; TIGR00895 502558003436 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 502558003437 putative substrate translocation pore; other site 502558003438 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 502558003439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 502558003440 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 502558003441 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 502558003442 FAD binding domain; Region: FAD_binding_4; pfam01565 502558003443 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 502558003444 Fic/DOC family; Region: Fic; cl00960 502558003445 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 502558003446 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 502558003447 GIY-YIG motif/motif A; other site 502558003448 active site 502558003449 catalytic site [active] 502558003450 putative DNA binding site [nucleotide binding]; other site 502558003451 metal binding site [ion binding]; metal-binding site 502558003452 UvrB/uvrC motif; Region: UVR; pfam02151 502558003453 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 502558003454 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 502558003455 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 502558003456 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 502558003457 phosphate binding site [ion binding]; other site 502558003458 putative substrate binding pocket [chemical binding]; other site 502558003459 dimer interface [polypeptide binding]; other site 502558003460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 502558003461 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 502558003462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003463 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 502558003464 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 502558003465 Phosphoglycerate kinase; Region: PGK; pfam00162 502558003466 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 502558003467 substrate binding site [chemical binding]; other site 502558003468 hinge regions; other site 502558003469 ADP binding site [chemical binding]; other site 502558003470 catalytic site [active] 502558003471 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 502558003472 substrate binding site [chemical binding]; other site 502558003473 dimer interface [polypeptide binding]; other site 502558003474 catalytic triad [active] 502558003475 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 502558003476 Sulfatase; Region: Sulfatase; cl10460 502558003477 Preprotein translocase SecG subunit; Region: SecG; cl09123 502558003478 Cation efflux family; Region: Cation_efflux; cl00316 502558003479 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 502558003480 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 502558003481 motif II; other site 502558003482 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 502558003483 DEAD-like helicases superfamily; Region: DEXDc; smart00487 502558003484 ATP binding site [chemical binding]; other site 502558003485 Mg++ binding site [ion binding]; other site 502558003486 motif III; other site 502558003487 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 502558003488 nucleotide binding region [chemical binding]; other site 502558003489 ATP-binding site [chemical binding]; other site 502558003490 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 502558003491 GAF domain; Region: GAF; cl15785 502558003492 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 502558003493 Histidine kinase; Region: HisKA_3; pfam07730 502558003494 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 502558003495 ATP binding site [chemical binding]; other site 502558003496 Mg2+ binding site [ion binding]; other site 502558003497 G-X-G motif; other site 502558003498 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 502558003499 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 502558003500 active site 502558003501 phosphorylation site [posttranslational modification] 502558003502 intermolecular recognition site; other site 502558003503 dimerization interface [polypeptide binding]; other site 502558003504 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 502558003505 DNA binding residues [nucleotide binding] 502558003506 dimerization interface [polypeptide binding]; other site 502558003507 Integral membrane protein TerC family; Region: TerC; cl10468 502558003508 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 502558003509 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 502558003510 ribonuclease D; Region: rnd; TIGR01388 502558003511 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 502558003512 catalytic site [active] 502558003513 putative active site [active] 502558003514 putative substrate binding site [chemical binding]; other site 502558003515 HRDC domain; Region: HRDC; cl02578 502558003516 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 502558003517 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 502558003518 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 502558003519 generic binding surface II; other site 502558003520 generic binding surface I; other site 502558003521 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 502558003522 Acetokinase family; Region: Acetate_kinase; cl01029 502558003523 propionate/acetate kinase; Provisional; Region: PRK12379 502558003524 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 502558003525 nucleotide binding site/active site [active] 502558003526 HIT family signature motif; other site 502558003527 catalytic residue [active] 502558003528 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 502558003529 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 502558003530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003531 UDP-galactopyranose mutase; Region: UDP-GALP_mutase; TIGR00031 502558003532 UDP-galactopyranose mutase; Region: GLF; pfam03275 502558003533 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 502558003534 active site 502558003535 OPT oligopeptide transporter protein; Region: OPT; cl14607 502558003536 OPT oligopeptide transporter protein; Region: OPT; cl14607 502558003537 Type III pantothenate kinase; Region: Pan_kinase; cl09130 502558003538 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 502558003539 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 502558003540 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 502558003541 DNA primase, catalytic core; Region: dnaG; TIGR01391 502558003542 CHC2 zinc finger; Region: zf-CHC2; cl15369 502558003543 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 502558003544 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 502558003545 active site 502558003546 metal binding site [ion binding]; metal-binding site 502558003547 interdomain interaction site; other site 502558003548 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 502558003549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558003550 Helix-turn-helix domains; Region: HTH; cl00088 502558003551 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 502558003552 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 502558003553 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 502558003554 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 502558003555 putative [Fe4-S4] binding site [ion binding]; other site 502558003556 putative molybdopterin cofactor binding site [chemical binding]; other site 502558003557 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 502558003558 putative molybdopterin cofactor binding site; other site 502558003559 tetrathionate reductase subunit B; Provisional; Region: PRK14993 502558003560 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 502558003561 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 502558003562 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 502558003563 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 502558003564 putative DNA binding site [nucleotide binding]; other site 502558003565 dimerization interface [polypeptide binding]; other site 502558003566 putative Zn2+ binding site [ion binding]; other site 502558003567 4Fe-4S binding domain; Region: Fer4; cl02805 502558003568 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 502558003569 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 502558003570 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 502558003571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003572 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 502558003573 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 502558003574 Right handed beta helix region; Region: Beta_helix; pfam13229 502558003575 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 502558003576 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 502558003577 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 502558003578 active site 502558003579 catalytic residues [active] 502558003580 metal binding site [ion binding]; metal-binding site 502558003581 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 502558003582 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 502558003583 putative active site [active] 502558003584 substrate binding site [chemical binding]; other site 502558003585 putative cosubstrate binding site; other site 502558003586 catalytic site [active] 502558003587 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cl14785 502558003588 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 502558003589 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 502558003590 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 502558003591 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 502558003592 DNA binding residues [nucleotide binding] 502558003593 dimerization interface [polypeptide binding]; other site 502558003594 hypothetical protein; Validated; Region: PRK07121 502558003595 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 502558003596 non-specific DNA binding site [nucleotide binding]; other site 502558003597 salt bridge; other site 502558003598 sequence-specific DNA binding site [nucleotide binding]; other site 502558003599 Cupin domain; Region: Cupin_2; cl09118 502558003600 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 502558003601 AMP-binding enzyme; Region: AMP-binding; cl15778 502558003602 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 502558003603 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 502558003604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558003605 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 502558003606 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 502558003607 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 502558003608 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 502558003609 dimer interface [polypeptide binding]; other site 502558003610 PYR/PP interface [polypeptide binding]; other site 502558003611 TPP binding site [chemical binding]; other site 502558003612 substrate binding site [chemical binding]; other site 502558003613 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 502558003614 TPP-binding site [chemical binding]; other site 502558003615 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 502558003616 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 502558003617 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 502558003618 non-specific DNA binding site [nucleotide binding]; other site 502558003619 salt bridge; other site 502558003620 sequence-specific DNA binding site [nucleotide binding]; other site 502558003621 Cupin domain; Region: Cupin_2; cl09118 502558003622 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 502558003623 AMP-binding enzyme; Region: AMP-binding; cl15778 502558003624 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 502558003625 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 502558003626 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 502558003627 active site 502558003628 catalytic tetrad [active] 502558003629 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 502558003630 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 502558003631 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 502558003632 Catalytic domain of Protein Kinases; Region: PKc; cd00180 502558003633 active site 502558003634 ATP binding site [chemical binding]; other site 502558003635 substrate binding site [chemical binding]; other site 502558003636 activation loop (A-loop); other site 502558003637 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 502558003638 Spore germination protein; Region: Spore_permease; cl15802 502558003639 hypothetical protein; Provisional; Region: PRK03881 502558003640 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 502558003641 AMMECR1; Region: AMMECR1; cl00911 502558003642 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 502558003643 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 502558003644 FeS/SAM binding site; other site 502558003645 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 502558003646 GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]; Region: TufB; COG0050 502558003647 G1 box; other site 502558003648 putative GEF interaction site [polypeptide binding]; other site 502558003649 GTP/Mg2+ binding site [chemical binding]; other site 502558003650 Switch I region; other site 502558003651 G2 box; other site 502558003652 G3 box; other site 502558003653 Switch II region; other site 502558003654 G4 box; other site 502558003655 G5 box; other site 502558003656 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 502558003657 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 502558003658 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 502558003659 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 502558003660 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 502558003661 selenocysteine synthase; Provisional; Region: PRK04311 502558003662 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 502558003663 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 502558003664 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 502558003665 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 502558003666 CPxP motif; other site 502558003667 DsrE/DsrF-like family; Region: DrsE; cl00672 502558003668 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 502558003669 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 502558003670 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 502558003671 catalytic residue [active] 502558003672 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 502558003673 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 502558003674 dimerization interface [polypeptide binding]; other site 502558003675 putative ATP binding site [chemical binding]; other site 502558003676 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 502558003677 DNA-binding site [nucleotide binding]; DNA binding site 502558003678 RNA-binding motif; other site 502558003679 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 502558003680 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 502558003681 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 502558003682 DNA binding residues [nucleotide binding] 502558003683 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 502558003684 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 502558003685 MatE; Region: MatE; cl10513 502558003686 MatE; Region: MatE; cl10513 502558003687 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 502558003688 NADH dehydrogenase; Region: NADHdh; cl00469 502558003689 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 502558003690 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 502558003691 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 502558003692 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 502558003693 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 502558003694 4Fe-4S binding domain; Region: Fer4; cl02805 502558003695 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 502558003696 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 502558003697 VanW like protein; Region: VanW; pfam04294 502558003698 G5 domain; Region: G5; pfam07501 502558003699 AMP-binding enzyme; Region: AMP-binding; cl15778 502558003700 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 502558003701 AMP-binding enzyme; Region: AMP-binding; cl15778 502558003702 ACT domain-containing protein [General function prediction only]; Region: COG4747 502558003703 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 502558003704 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 502558003705 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 502558003706 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 502558003707 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 502558003708 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 502558003709 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 502558003710 phosphopeptide binding site; other site 502558003711 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 502558003712 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 502558003713 dimer interface [polypeptide binding]; other site 502558003714 PYR/PP interface [polypeptide binding]; other site 502558003715 TPP binding site [chemical binding]; other site 502558003716 substrate binding site [chemical binding]; other site 502558003717 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 502558003718 TPP-binding site; other site 502558003719 4Fe-4S binding domain; Region: Fer4; cl02805 502558003720 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 502558003721 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 502558003722 ACT domain-containing protein [General function prediction only]; Region: COG4747 502558003723 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 502558003724 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 502558003725 AMP-binding enzyme; Region: AMP-binding; cl15778 502558003726 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 502558003727 AMP-binding enzyme; Region: AMP-binding; cl15778 502558003728 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 502558003729 active site 502558003730 HIGH motif; other site 502558003731 nucleotide binding site [chemical binding]; other site 502558003732 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 502558003733 active site 502558003734 KMSKS motif; other site 502558003735 VanZ like family; Region: VanZ; cl01971 502558003736 UbiA prenyltransferase family; Region: UbiA; cl00337 502558003737 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 502558003738 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 502558003739 active site 502558003740 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 502558003741 active site 502558003742 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 502558003743 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 502558003744 putative homodimer interface [polypeptide binding]; other site 502558003745 putative DNA binding site [nucleotide binding]; other site 502558003746 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 502558003747 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 502558003748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003749 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 502558003750 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 502558003751 DNA binding residues [nucleotide binding] 502558003752 putative dimer interface [polypeptide binding]; other site 502558003753 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 502558003754 trimer interface [polypeptide binding]; other site 502558003755 active site 502558003756 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 502558003757 ATP cone domain; Region: ATP-cone; pfam03477 502558003758 Helix-turn-helix domains; Region: HTH; cl00088 502558003759 LexA repressor; Validated; Region: PRK00215 502558003760 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 502558003761 Catalytic site [active] 502558003762 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 502558003763 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 502558003764 HflX GTPase family; Region: HflX; cd01878 502558003765 G1 box; other site 502558003766 GTP/Mg2+ binding site [chemical binding]; other site 502558003767 Switch I region; other site 502558003768 G2 box; other site 502558003769 G3 box; other site 502558003770 Switch II region; other site 502558003771 G4 box; other site 502558003772 G5 box; other site 502558003773 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558003774 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 502558003775 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 502558003776 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 502558003777 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 502558003778 FeS/SAM binding site; other site 502558003779 TRAM domain; Region: TRAM; cl01282 502558003780 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 502558003781 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 502558003782 ATP binding site [chemical binding]; other site 502558003783 Mg2+ binding site [ion binding]; other site 502558003784 G-X-G motif; other site 502558003785 phosphodiesterase; Provisional; Region: PRK12704 502558003786 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 502558003787 Zn2+ binding site [ion binding]; other site 502558003788 Mg2+ binding site [ion binding]; other site 502558003789 RecX family; Region: RecX; cl00936 502558003790 recombinase A; Provisional; Region: recA; PRK09354 502558003791 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 502558003792 hexamer interface [polypeptide binding]; other site 502558003793 Walker A motif; other site 502558003794 ATP binding site [chemical binding]; other site 502558003795 Walker B motif; other site 502558003796 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 502558003797 Competence-damaged protein; Region: CinA; cl00666 502558003798 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 502558003799 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 502558003800 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 502558003801 FeS/SAM binding site; other site 502558003802 TRAM domain; Region: TRAM; cl01282 502558003803 Protein of unknown function (DUF520); Region: DUF520; cl00723 502558003804 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 502558003805 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 502558003806 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558003807 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 502558003808 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 502558003809 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 502558003810 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 502558003811 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 502558003812 dihydrodipicolinate synthase; Region: dapA; TIGR00674 502558003813 dimer interface [polypeptide binding]; other site 502558003814 active site 502558003815 catalytic residue [active] 502558003816 dihydrodipicolinate reductase; Provisional; Region: PRK00048 502558003817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003818 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 502558003819 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 502558003820 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 502558003821 RNase E interface [polypeptide binding]; other site 502558003822 trimer interface [polypeptide binding]; other site 502558003823 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 502558003824 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 502558003825 RNase E interface [polypeptide binding]; other site 502558003826 trimer interface [polypeptide binding]; other site 502558003827 active site 502558003828 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 502558003829 putative nucleic acid binding region [nucleotide binding]; other site 502558003830 G-X-X-G motif; other site 502558003831 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 502558003832 RNA binding site [nucleotide binding]; other site 502558003833 domain interface; other site 502558003834 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 502558003835 16S/18S rRNA binding site [nucleotide binding]; other site 502558003836 S13e-L30e interaction site [polypeptide binding]; other site 502558003837 25S rRNA binding site [nucleotide binding]; other site 502558003838 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 502558003839 dimer interface [polypeptide binding]; other site 502558003840 phosphorylation site [posttranslational modification] 502558003841 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 502558003842 ATP binding site [chemical binding]; other site 502558003843 Mg2+ binding site [ion binding]; other site 502558003844 G-X-G motif; other site 502558003845 TSCPD domain; Region: TSCPD; cl14834 502558003846 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 502558003847 Recombination protein O N terminal; Region: RecO_N; cl15812 502558003848 Recombination protein O C terminal; Region: RecO_C; pfam02565 502558003849 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 502558003850 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 502558003851 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 502558003852 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 502558003853 GTPase Era; Reviewed; Region: era; PRK00089 502558003854 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 502558003855 G1 box; other site 502558003856 GTP/Mg2+ binding site [chemical binding]; other site 502558003857 Switch I region; other site 502558003858 G2 box; other site 502558003859 Switch II region; other site 502558003860 G3 box; other site 502558003861 G4 box; other site 502558003862 G5 box; other site 502558003863 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 502558003864 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 502558003865 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 502558003866 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558003867 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 502558003868 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 502558003869 putative active site [active] 502558003870 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 502558003871 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 502558003872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 502558003873 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 502558003874 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 502558003875 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 502558003876 chaperone protein DnaJ; Provisional; Region: PRK14299 502558003877 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 502558003878 HSP70 interaction site [polypeptide binding]; other site 502558003879 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 502558003880 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 502558003881 Zn binding sites [ion binding]; other site 502558003882 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 502558003883 dimer interface [polypeptide binding]; other site 502558003884 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 502558003885 Helix-turn-helix domains; Region: HTH; cl00088 502558003886 HrcA protein C terminal domain; Region: HrcA; pfam01628 502558003887 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 502558003888 amidase catalytic site [active] 502558003889 Zn binding residues [ion binding]; other site 502558003890 substrate binding site [chemical binding]; other site 502558003891 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 502558003892 YARHG domain; Region: YARHG; pfam13308 502558003893 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 502558003894 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 502558003895 FeS/SAM binding site; other site 502558003896 HemN C-terminal domain; Region: HemN_C; pfam06969 502558003897 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 502558003898 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 502558003899 FMN binding site [chemical binding]; other site 502558003900 active site 502558003901 catalytic residues [active] 502558003902 substrate binding site [chemical binding]; other site 502558003903 GTP-binding protein LepA; Provisional; Region: PRK05433 502558003904 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 502558003905 G1 box; other site 502558003906 putative GEF interaction site [polypeptide binding]; other site 502558003907 GTP/Mg2+ binding site [chemical binding]; other site 502558003908 Switch I region; other site 502558003909 G2 box; other site 502558003910 G3 box; other site 502558003911 Switch II region; other site 502558003912 G4 box; other site 502558003913 G5 box; other site 502558003914 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 502558003915 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 502558003916 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 502558003917 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 502558003918 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 502558003919 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 502558003920 Competence protein; Region: Competence; cl00471 502558003921 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 502558003922 SLBB domain; Region: SLBB; pfam10531 502558003923 comEA protein; Region: comE; TIGR01259 502558003924 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 502558003925 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 502558003926 THUMP domain; Region: THUMP; cl12076 502558003927 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 502558003928 Ligand Binding Site [chemical binding]; other site 502558003929 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 502558003930 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 502558003931 catalytic site [active] 502558003932 G-X2-G-X-G-K; other site 502558003933 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 502558003934 active site 502558003935 dimer interface [polypeptide binding]; other site 502558003936 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 502558003937 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 502558003938 heterodimer interface [polypeptide binding]; other site 502558003939 active site 502558003940 FMN binding site [chemical binding]; other site 502558003941 homodimer interface [polypeptide binding]; other site 502558003942 substrate binding site [chemical binding]; other site 502558003943 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 502558003944 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 502558003945 FAD binding pocket [chemical binding]; other site 502558003946 FAD binding motif [chemical binding]; other site 502558003947 phosphate binding motif [ion binding]; other site 502558003948 beta-alpha-beta structure motif; other site 502558003949 NAD binding pocket [chemical binding]; other site 502558003950 Iron coordination center [ion binding]; other site 502558003951 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 502558003952 non-specific DNA binding site [nucleotide binding]; other site 502558003953 salt bridge; other site 502558003954 sequence-specific DNA binding site [nucleotide binding]; other site 502558003955 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 502558003956 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 502558003957 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 502558003958 Helix-turn-helix domains; Region: HTH; cl00088 502558003959 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 502558003960 non-specific DNA binding site [nucleotide binding]; other site 502558003961 salt bridge; other site 502558003962 sequence-specific DNA binding site [nucleotide binding]; other site 502558003963 CAAX protease self-immunity; Region: Abi; cl00558 502558003964 LabA_like proteins; Region: LabA; cd10911 502558003965 putative metal binding site [ion binding]; other site 502558003966 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 502558003967 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 502558003968 ATP-grasp domain; Region: ATP-grasp_4; cl03087 502558003969 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 502558003970 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 502558003971 ATP-grasp domain; Region: ATP-grasp_4; cl03087 502558003972 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 502558003973 IMP binding site; other site 502558003974 dimer interface [polypeptide binding]; other site 502558003975 interdomain contacts; other site 502558003976 partial ornithine binding site; other site 502558003977 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 502558003978 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 502558003979 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 502558003980 catalytic site [active] 502558003981 subunit interface [polypeptide binding]; other site 502558003982 dihydroorotase; Validated; Region: pyrC; PRK09357 502558003983 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 502558003984 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 502558003985 active site 502558003986 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 502558003987 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 502558003988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558003989 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 502558003990 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 502558003991 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 502558003992 substrate binding site [chemical binding]; other site 502558003993 oxyanion hole (OAH) forming residues; other site 502558003994 trimer interface [polypeptide binding]; other site 502558003995 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 502558003996 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 502558003997 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558003998 active site 502558003999 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558004000 Helix-turn-helix domains; Region: HTH; cl00088 502558004001 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 502558004002 dimerization interface [polypeptide binding]; other site 502558004003 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 502558004004 Flavoprotein; Region: Flavoprotein; cl08021 502558004005 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 502558004006 ferrochelatase; Reviewed; Region: hemH; PRK00035 502558004007 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 502558004008 C-terminal domain interface [polypeptide binding]; other site 502558004009 active site 502558004010 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 502558004011 active site 502558004012 N-terminal domain interface [polypeptide binding]; other site 502558004013 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 502558004014 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 502558004015 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 502558004016 RNA binding surface [nucleotide binding]; other site 502558004017 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 502558004018 active site 502558004019 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 502558004020 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 502558004021 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 502558004022 active site 502558004023 HIGH motif; other site 502558004024 nucleotide binding site [chemical binding]; other site 502558004025 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 502558004026 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 502558004027 active site 502558004028 KMSKS motif; other site 502558004029 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 502558004030 tRNA binding surface [nucleotide binding]; other site 502558004031 anticodon binding site; other site 502558004032 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 502558004033 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 502558004034 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 502558004035 active site 502558004036 DNA polymerase IV; Validated; Region: PRK02406 502558004037 DNA binding site [nucleotide binding] 502558004038 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 502558004039 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 502558004040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558004041 homodimer interface [polypeptide binding]; other site 502558004042 catalytic residue [active] 502558004043 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 502558004044 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 502558004045 metal-binding site [ion binding] 502558004046 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 502558004047 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 502558004048 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 502558004049 metal-binding site [ion binding] 502558004050 C-terminal domain of Faecalibacterium prausnitzii A2-165 FrmR , and related domains; this domain family was previously known as part of DUF156; Region: FpFrmR-Cterm-like_DUF156; cd10156 502558004051 putative homodimer interface [polypeptide binding]; other site 502558004052 putative homotetramer interface [polypeptide binding]; other site 502558004053 putative allosteric switch controlling residues; other site 502558004054 putative metal binding site [ion binding]; other site 502558004055 putative homodimer-homodimer interface [polypeptide binding]; other site 502558004056 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 502558004057 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 502558004058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 502558004059 Coenzyme A binding pocket [chemical binding]; other site 502558004060 YoaP-like; Region: YoaP; pfam14268 502558004061 EamA-like transporter family; Region: EamA; cl01037 502558004062 EamA-like transporter family; Region: EamA; cl01037 502558004063 Cupin domain; Region: Cupin_2; cl09118 502558004064 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 502558004065 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 502558004066 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 502558004067 Flavin Reductases; Region: FlaRed; cl00801 502558004068 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 502558004069 dimerization interface [polypeptide binding]; other site 502558004070 putative DNA binding site [nucleotide binding]; other site 502558004071 putative Zn2+ binding site [ion binding]; other site 502558004072 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 502558004073 metal-binding site [ion binding] 502558004074 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 502558004075 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 502558004076 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 502558004077 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 502558004078 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 502558004079 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 502558004080 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 502558004081 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 502558004082 catalytic residue [active] 502558004083 uracil-xanthine permease; Region: ncs2; TIGR00801 502558004084 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 502558004085 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 502558004086 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 502558004087 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 502558004088 ATP Binding subdomain [chemical binding]; other site 502558004089 Ligand Binding sites [chemical binding]; other site 502558004090 Dimerization subdomain; other site 502558004091 Helix-turn-helix domains; Region: HTH; cl00088 502558004092 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 502558004093 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 502558004094 Methyltransferase domain; Region: Methyltransf_31; pfam13847 502558004095 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 502558004096 S-adenosylmethionine binding site [chemical binding]; other site 502558004097 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558004098 Helix-turn-helix domains; Region: HTH; cl00088 502558004099 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 502558004100 non-specific DNA binding site [nucleotide binding]; other site 502558004101 salt bridge; other site 502558004102 sequence-specific DNA binding site [nucleotide binding]; other site 502558004103 integrase; Provisional; Region: int; PHA02601 502558004104 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 502558004105 Int/Topo IB signature motif; other site 502558004106 Restriction endonuclease; Region: Mrr_cat; cl00516 502558004107 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 502558004108 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 502558004109 P-loop; other site 502558004110 Magnesium ion binding site [ion binding]; other site 502558004111 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004112 ParB-like nuclease domain; Region: ParBc; cl02129 502558004113 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 502558004114 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 502558004115 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 502558004116 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 502558004117 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 502558004118 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 502558004119 active site 502558004120 catalytic site [active] 502558004121 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 502558004122 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 502558004123 NlpC/P60 family; Region: NLPC_P60; cl11438 502558004124 AAA-like domain; Region: AAA_10; pfam12846 502558004125 Domain of unknown function DUF87; Region: DUF87; pfam01935 502558004126 PrgI family protein; Region: PrgI; pfam12666 502558004127 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 502558004128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004129 Walker A motif; other site 502558004130 ATP binding site [chemical binding]; other site 502558004131 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004132 Walker B motif; other site 502558004133 hypothetical protein; Validated; Region: PRK08116 502558004134 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004135 Helix-turn-helix domains; Region: HTH; cl00088 502558004136 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 502558004137 DNA binding residues [nucleotide binding] 502558004138 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 502558004139 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 502558004140 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 502558004141 Helix-turn-helix domains; Region: HTH; cl00088 502558004142 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 502558004143 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 502558004144 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558004145 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558004146 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 502558004147 Walker A/P-loop; other site 502558004148 ATP binding site [chemical binding]; other site 502558004149 Q-loop/lid; other site 502558004150 ABC transporter signature motif; other site 502558004151 Walker B; other site 502558004152 D-loop; other site 502558004153 H-loop/switch region; other site 502558004154 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558004155 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558004156 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004157 Walker A/P-loop; other site 502558004158 ATP binding site [chemical binding]; other site 502558004159 Q-loop/lid; other site 502558004160 ABC transporter signature motif; other site 502558004161 Walker B; other site 502558004162 D-loop; other site 502558004163 H-loop/switch region; other site 502558004164 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 502558004165 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 502558004166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004167 Q-loop/lid; other site 502558004168 ABC transporter signature motif; other site 502558004169 Walker B; other site 502558004170 D-loop; other site 502558004171 H-loop/switch region; other site 502558004172 Cobalt transport protein; Region: CbiQ; cl00463 502558004173 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 502558004174 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 502558004175 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 502558004176 Amidohydrolase; Region: Amidohydro_4; pfam13147 502558004177 active site 502558004178 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 502558004179 Integrase core domain; Region: rve_3; cl15866 502558004180 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 502558004181 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 502558004182 G1 box; other site 502558004183 GTP/Mg2+ binding site [chemical binding]; other site 502558004184 Switch I region; other site 502558004185 G2 box; other site 502558004186 Switch II region; other site 502558004187 G3 box; other site 502558004188 G4 box; other site 502558004189 G5 box; other site 502558004190 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 502558004191 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 502558004192 FeS/SAM binding site; other site 502558004193 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 502558004194 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 502558004195 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 502558004196 FeS/SAM binding site; other site 502558004197 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 502558004198 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 502558004199 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 502558004200 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 502558004201 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 502558004202 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 502558004203 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 502558004204 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 502558004205 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 502558004206 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 502558004207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004208 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 502558004209 oxidoreductase; Provisional; Region: PRK10015 502558004210 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 502558004211 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 502558004212 active site 502558004213 FMN binding site [chemical binding]; other site 502558004214 substrate binding site [chemical binding]; other site 502558004215 putative catalytic residue [active] 502558004216 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 502558004217 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 502558004218 classical (c) SDRs; Region: SDR_c; cd05233 502558004219 NAD(P) binding site [chemical binding]; other site 502558004220 active site 502558004221 hypothetical protein; Validated; Region: PRK07121 502558004222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004223 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 502558004224 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 502558004225 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 502558004226 Ligand Binding Site [chemical binding]; other site 502558004227 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 502558004228 active site 502558004229 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 502558004230 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 502558004231 DNA binding residues [nucleotide binding] 502558004232 dimerization interface [polypeptide binding]; other site 502558004233 Integrase core domain; Region: rve_3; cl15866 502558004234 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 502558004235 Helix-turn-helix domains; Region: HTH; cl00088 502558004236 putative transposase OrfB; Reviewed; Region: PHA02517 502558004237 HTH-like domain; Region: HTH_21; pfam13276 502558004238 Integrase core domain; Region: rve; cl01316 502558004239 Integrase core domain; Region: rve_3; cl15866 502558004240 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 502558004241 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 502558004242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 502558004243 Leucine carboxyl methyltransferase; Region: LCM; cl01306 502558004244 Helix-turn-helix domains; Region: HTH; cl00088 502558004245 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 502558004246 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 502558004247 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 502558004248 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 502558004249 G1 box; other site 502558004250 GTP/Mg2+ binding site [chemical binding]; other site 502558004251 Switch I region; other site 502558004252 G2 box; other site 502558004253 G3 box; other site 502558004254 Switch II region; other site 502558004255 G4 box; other site 502558004256 G5 box; other site 502558004257 Nucleoside recognition; Region: Gate; cl00486 502558004258 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 502558004259 FeoA domain; Region: FeoA; cl00838 502558004260 Helix-turn-helix domain; Region: HTH_18; pfam12833 502558004261 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558004262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004263 Walker A/P-loop; other site 502558004264 ATP binding site [chemical binding]; other site 502558004265 Q-loop/lid; other site 502558004266 ABC transporter signature motif; other site 502558004267 Walker B; other site 502558004268 D-loop; other site 502558004269 H-loop/switch region; other site 502558004270 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558004271 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558004272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004273 Walker A/P-loop; other site 502558004274 ATP binding site [chemical binding]; other site 502558004275 Q-loop/lid; other site 502558004276 ABC transporter signature motif; other site 502558004277 Walker B; other site 502558004278 D-loop; other site 502558004279 H-loop/switch region; other site 502558004280 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 502558004281 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 502558004282 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 502558004283 Walker A/P-loop; other site 502558004284 ATP binding site [chemical binding]; other site 502558004285 Q-loop/lid; other site 502558004286 ABC transporter signature motif; other site 502558004287 Walker B; other site 502558004288 D-loop; other site 502558004289 H-loop/switch region; other site 502558004290 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004291 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 502558004292 Walker A/P-loop; other site 502558004293 ATP binding site [chemical binding]; other site 502558004294 Q-loop/lid; other site 502558004295 ABC transporter signature motif; other site 502558004296 Walker B; other site 502558004297 D-loop; other site 502558004298 H-loop/switch region; other site 502558004299 Cobalt transport protein; Region: CbiQ; cl00463 502558004300 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 502558004301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 502558004302 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 502558004303 AAA domain; Region: AAA_23; pfam13476 502558004304 Walker A/P-loop; other site 502558004305 ATP binding site [chemical binding]; other site 502558004306 AAA domain; Region: AAA_13; pfam13166 502558004307 Protein of unknown function DUF86; Region: DUF86; cl01031 502558004308 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558004309 Helix-turn-helix domains; Region: HTH; cl00088 502558004310 Predicted membrane protein [Function unknown]; Region: COG1511 502558004311 Predicted membrane protein [Function unknown]; Region: COG1511 502558004312 Fic/DOC family; Region: Fic; cl00960 502558004313 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 502558004314 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 502558004315 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 502558004316 active site 502558004317 catalytic residues [active] 502558004318 zeta-carotene desaturase; Region: PLN02487 502558004319 hypothetical protein; Validated; Region: PRK07121 502558004320 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 502558004321 DNA binding residues [nucleotide binding] 502558004322 dimerization interface [polypeptide binding]; other site 502558004323 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 502558004324 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 502558004325 ArsC family; Region: ArsC; pfam03960 502558004326 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 502558004327 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 502558004328 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 502558004329 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 502558004330 RNA binding site [nucleotide binding]; other site 502558004331 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 502558004332 homotrimer interaction site [polypeptide binding]; other site 502558004333 putative active site [active] 502558004334 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 502558004335 homotrimer interaction site [polypeptide binding]; other site 502558004336 putative active site [active] 502558004337 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 502558004338 homotrimer interaction site [polypeptide binding]; other site 502558004339 putative active site [active] 502558004340 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 502558004341 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 502558004342 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 502558004343 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 502558004344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004345 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 502558004346 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004347 Walker A/P-loop; other site 502558004348 ATP binding site [chemical binding]; other site 502558004349 Q-loop/lid; other site 502558004350 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 502558004351 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004352 ABC transporter signature motif; other site 502558004353 Walker B; other site 502558004354 D-loop; other site 502558004355 H-loop/switch region; other site 502558004356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004357 Walker A/P-loop; other site 502558004358 ATP binding site [chemical binding]; other site 502558004359 Q-loop/lid; other site 502558004360 ABC transporter signature motif; other site 502558004361 Walker B; other site 502558004362 D-loop; other site 502558004363 H-loop/switch region; other site 502558004364 Predicted membrane protein [Function unknown]; Region: COG1511 502558004365 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 502558004366 Proteins of 100 residues with WXG; Region: WXG100; cl02005 502558004367 ABC-2 type transporter; Region: ABC2_membrane; cl11417 502558004368 Predicted membrane protein [Function unknown]; Region: COG1511 502558004369 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 502558004370 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 502558004371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004372 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 502558004373 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 502558004374 iron-sulfur cluster [ion binding]; other site 502558004375 [2Fe-2S] cluster binding site [ion binding]; other site 502558004376 DNA polymerase IV; Reviewed; Region: PRK03103 502558004377 Y-family of DNA polymerases; Region: PolY; cl12025 502558004378 active site 502558004379 DNA binding site [nucleotide binding] 502558004380 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558004381 Polysulphide reductase, NrfD; Region: NrfD; cl01295 502558004382 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558004383 Predicted transcriptional regulators [Transcription]; Region: COG1725 502558004384 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 502558004385 DNA-binding site [nucleotide binding]; DNA binding site 502558004386 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 502558004387 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 502558004388 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558004389 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558004390 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004391 Walker A/P-loop; other site 502558004392 ATP binding site [chemical binding]; other site 502558004393 Q-loop/lid; other site 502558004394 ABC transporter signature motif; other site 502558004395 Walker B; other site 502558004396 D-loop; other site 502558004397 H-loop/switch region; other site 502558004398 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 502558004399 Mechanosensitive ion channel; Region: MS_channel; pfam00924 502558004400 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 502558004401 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 502558004402 substrate binding pocket [chemical binding]; other site 502558004403 membrane-bound complex binding site; other site 502558004404 hinge residues; other site 502558004405 ski2-like helicase; Provisional; Region: PRK02362 502558004406 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 502558004407 ATP binding site [chemical binding]; other site 502558004408 putative Mg++ binding site [ion binding]; other site 502558004409 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 502558004410 nucleotide binding region [chemical binding]; other site 502558004411 ATP-binding site [chemical binding]; other site 502558004412 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 502558004413 Cupin domain; Region: Cupin_2; cl09118 502558004414 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 502558004415 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558004416 putative substrate translocation pore; other site 502558004417 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 502558004418 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 502558004419 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 502558004420 ABC transporter; Region: ABC_tran_2; pfam12848 502558004421 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 502558004422 Predicted DNA binding protein [General function prediction only]; Region: COG3413 502558004423 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 502558004424 DNA binding residues [nucleotide binding] 502558004425 dimerization interface [polypeptide binding]; other site 502558004426 MatE; Region: MatE; cl10513 502558004427 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 502558004428 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 502558004429 Ligand binding site; other site 502558004430 Putative Catalytic site; other site 502558004431 DXD motif; other site 502558004432 flagellin modification protein A; Provisional; Region: PRK09186 502558004433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004434 NAD(P) binding site [chemical binding]; other site 502558004435 active site 502558004436 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 502558004437 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 502558004438 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 502558004439 PYR/PP interface [polypeptide binding]; other site 502558004440 dimer interface [polypeptide binding]; other site 502558004441 TPP binding site [chemical binding]; other site 502558004442 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 502558004443 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 502558004444 TPP-binding site [chemical binding]; other site 502558004445 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 502558004446 NeuB family; Region: NeuB; cl00496 502558004447 SAF domain; Region: SAF; cl00555 502558004448 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 502558004449 ligand binding site; other site 502558004450 tetramer interface; other site 502558004451 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 502558004452 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 502558004453 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 502558004454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004455 NAD(P) binding site [chemical binding]; other site 502558004456 active site 502558004457 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 502558004458 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 502558004459 inhibitor-cofactor binding pocket; inhibition site 502558004460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558004461 catalytic residue [active] 502558004462 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 502558004463 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 502558004464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004465 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 502558004466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004467 NAD(P) binding site [chemical binding]; other site 502558004468 active site 502558004469 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 502558004470 substrate binding site; other site 502558004471 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 502558004472 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 502558004473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004474 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 502558004475 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558004476 EamA-like transporter family; Region: EamA; cl01037 502558004477 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 502558004478 EamA-like transporter family; Region: EamA; cl01037 502558004479 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 502558004480 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558004481 EamA-like transporter family; Region: EamA; cl01037 502558004482 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 502558004483 EamA-like transporter family; Region: EamA; cl01037 502558004484 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558004485 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 502558004486 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 502558004487 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 502558004488 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 502558004489 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 502558004490 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 502558004491 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558004492 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 502558004493 FtsX-like permease family; Region: FtsX; cl15850 502558004494 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 502558004495 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 502558004496 Walker A/P-loop; other site 502558004497 ATP binding site [chemical binding]; other site 502558004498 Q-loop/lid; other site 502558004499 ABC transporter signature motif; other site 502558004500 Walker B; other site 502558004501 D-loop; other site 502558004502 H-loop/switch region; other site 502558004503 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; cl00080 502558004504 phosphorylation site [posttranslational modification] 502558004505 dimer interface [polypeptide binding]; other site 502558004506 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 502558004507 ATP binding site [chemical binding]; other site 502558004508 Mg2+ binding site [ion binding]; other site 502558004509 G-X-G motif; other site 502558004510 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558004511 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 502558004512 active site 502558004513 phosphorylation site [posttranslational modification] 502558004514 intermolecular recognition site; other site 502558004515 dimerization interface [polypeptide binding]; other site 502558004516 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 502558004517 DNA binding site [nucleotide binding] 502558004518 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 502558004519 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 502558004520 active site 502558004521 Int/Topo IB signature motif; other site 502558004522 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 502558004523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004524 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 502558004525 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 502558004526 Mg chelatase-related protein; Region: TIGR00368 502558004527 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 502558004528 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004529 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 502558004530 Restriction endonuclease; Region: Mrr_cat; cl00516 502558004531 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 502558004532 RNA/DNA hybrid binding site [nucleotide binding]; other site 502558004533 active site 502558004534 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 502558004535 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 502558004536 AzlC protein; Region: AzlC; cl00570 502558004537 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 502558004538 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 502558004539 active site 502558004540 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 502558004541 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 502558004542 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 502558004543 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 502558004544 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 502558004545 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 502558004546 Transcriptional regulators [Transcription]; Region: MarR; COG1846 502558004547 Helix-turn-helix domains; Region: HTH; cl00088 502558004548 hypothetical protein; Validated; Region: PRK07121 502558004549 FMN-binding domain; Region: FMN_bind; cl01081 502558004550 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558004551 Helix-turn-helix domains; Region: HTH; cl00088 502558004552 pyruvate phosphate dikinase; Provisional; Region: PRK09279 502558004553 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 502558004554 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 502558004555 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 502558004556 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 502558004557 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 502558004558 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 502558004559 dimer interface [polypeptide binding]; other site 502558004560 motif 1; other site 502558004561 active site 502558004562 motif 2; other site 502558004563 motif 3; other site 502558004564 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 502558004565 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 502558004566 Catalytic site [active] 502558004567 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 502558004568 RimM N-terminal domain; Region: RimM; pfam01782 502558004569 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 502558004570 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 502558004571 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 502558004572 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 502558004573 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 502558004574 hypothetical protein; Validated; Region: PRK07121 502558004575 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 502558004576 DNA binding residues [nucleotide binding] 502558004577 dimerization interface [polypeptide binding]; other site 502558004578 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 502558004579 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558004580 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 502558004581 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 502558004582 Walker A/P-loop; other site 502558004583 ATP binding site [chemical binding]; other site 502558004584 Q-loop/lid; other site 502558004585 ABC transporter signature motif; other site 502558004586 Walker B; other site 502558004587 D-loop; other site 502558004588 H-loop/switch region; other site 502558004589 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 502558004590 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 502558004591 active site 502558004592 catalytic residues [active] 502558004593 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 502558004594 catalytic residues [active] 502558004595 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 502558004596 signal recognition particle protein; Provisional; Region: PRK10867 502558004597 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 502558004598 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 502558004599 P loop; other site 502558004600 GTP binding site [chemical binding]; other site 502558004601 Signal peptide binding domain; Region: SRP_SPB; pfam02978 502558004602 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 502558004603 non-specific DNA binding site [nucleotide binding]; other site 502558004604 salt bridge; other site 502558004605 sequence-specific DNA binding site [nucleotide binding]; other site 502558004606 Domain of unknown function (DUF955); Region: DUF955; cl01076 502558004607 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 502558004608 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 502558004609 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 502558004610 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 502558004611 P loop; other site 502558004612 GTP binding site [chemical binding]; other site 502558004613 glucose-1-dehydrogenase; Provisional; Region: PRK08936 502558004614 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 502558004615 NAD binding site [chemical binding]; other site 502558004616 homodimer interface [polypeptide binding]; other site 502558004617 active site 502558004618 Predicted membrane protein [Function unknown]; Region: COG2364 502558004619 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 502558004620 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 502558004621 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 502558004622 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558004623 4Fe-4S binding domain; Region: Fer4; cl02805 502558004624 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 502558004625 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558004626 molybdopterin cofactor binding site; other site 502558004627 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558004628 molybdopterin cofactor binding site; other site 502558004629 Helix-turn-helix domains; Region: HTH; cl00088 502558004630 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 502558004631 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; cd05466 502558004632 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 502558004633 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 502558004634 Walker A/P-loop; other site 502558004635 ATP binding site [chemical binding]; other site 502558004636 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 502558004637 ABC transporter signature motif; other site 502558004638 Walker B; other site 502558004639 D-loop; other site 502558004640 H-loop/switch region; other site 502558004641 ribonuclease III; Reviewed; Region: rnc; PRK00102 502558004642 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 502558004643 dimerization interface [polypeptide binding]; other site 502558004644 active site 502558004645 metal binding site [ion binding]; metal-binding site 502558004646 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 502558004647 dsRNA binding site [nucleotide binding]; other site 502558004648 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 502558004649 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 502558004650 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558004651 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558004652 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 502558004653 Walker A/P-loop; other site 502558004654 ATP binding site [chemical binding]; other site 502558004655 Q-loop/lid; other site 502558004656 ABC transporter signature motif; other site 502558004657 Walker B; other site 502558004658 D-loop; other site 502558004659 H-loop/switch region; other site 502558004660 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 502558004661 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 502558004662 Cl- selectivity filter; other site 502558004663 Cl- binding residues [ion binding]; other site 502558004664 pore gating glutamate residue; other site 502558004665 dimer interface [polypeptide binding]; other site 502558004666 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 502558004667 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 502558004668 Walker A/P-loop; other site 502558004669 ATP binding site [chemical binding]; other site 502558004670 Q-loop/lid; other site 502558004671 ABC transporter signature motif; other site 502558004672 Walker B; other site 502558004673 D-loop; other site 502558004674 H-loop/switch region; other site 502558004675 Predicted transcriptional regulators [Transcription]; Region: COG1725 502558004676 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 502558004677 DNA-binding site [nucleotide binding]; DNA binding site 502558004678 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 502558004679 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 502558004680 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 502558004681 active site 502558004682 (T/H)XGH motif; other site 502558004683 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 502558004684 S-adenosylmethionine binding site [chemical binding]; other site 502558004685 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 502558004686 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 502558004687 generic binding surface II; other site 502558004688 ssDNA binding site; other site 502558004689 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 502558004690 ATP binding site [chemical binding]; other site 502558004691 putative Mg++ binding site [ion binding]; other site 502558004692 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 502558004693 nucleotide binding region [chemical binding]; other site 502558004694 ATP-binding site [chemical binding]; other site 502558004695 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 502558004696 DAK2 domain; Region: Dak2; cl03685 502558004697 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 502558004698 Asp23 family; Region: Asp23; cl00574 502558004699 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 502558004700 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 502558004701 Putative zinc ribbon domain; Region: DUF164; pfam02591 502558004702 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 502558004703 histidinol-phosphatase; Provisional; Region: PRK07328 502558004704 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 502558004705 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 502558004706 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 502558004707 catalytic residue [active] 502558004708 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 502558004709 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 502558004710 substrate binding site [chemical binding]; other site 502558004711 hexamer interface [polypeptide binding]; other site 502558004712 metal binding site [ion binding]; metal-binding site 502558004713 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 502558004714 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 502558004715 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 502558004716 DNA binding site [nucleotide binding] 502558004717 active site 502558004718 VanZ like family; Region: VanZ; cl01971 502558004719 RDD family; Region: RDD; cl00746 502558004720 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 502558004721 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 502558004722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004723 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 502558004724 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 502558004725 GTP-binding protein Der; Reviewed; Region: PRK00093 502558004726 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 502558004727 G1 box; other site 502558004728 GTP/Mg2+ binding site [chemical binding]; other site 502558004729 Switch I region; other site 502558004730 G2 box; other site 502558004731 Switch II region; other site 502558004732 G3 box; other site 502558004733 G4 box; other site 502558004734 G5 box; other site 502558004735 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 502558004736 G1 box; other site 502558004737 GTP/Mg2+ binding site [chemical binding]; other site 502558004738 Switch I region; other site 502558004739 G2 box; other site 502558004740 G3 box; other site 502558004741 Switch II region; other site 502558004742 G4 box; other site 502558004743 G5 box; other site 502558004744 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 502558004745 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 502558004746 Protein of unknown function (DUF512); Region: DUF512; pfam04459 502558004747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 502558004748 Peptidase family M23; Region: Peptidase_M23; pfam01551 502558004749 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 502558004750 LytB protein; Region: LYTB; cl00507 502558004751 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 502558004752 putative acyl-acceptor binding pocket; other site 502558004753 cytidylate kinase; Provisional; Region: cmk; PRK00023 502558004754 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 502558004755 CMP-binding site; other site 502558004756 The sites determining sugar specificity; other site 502558004757 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 502558004758 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 502558004759 hinge; other site 502558004760 active site 502558004761 prephenate dehydrogenase; Validated; Region: PRK06545 502558004762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004763 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 502558004764 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 502558004765 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 502558004766 RNA binding surface [nucleotide binding]; other site 502558004767 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 502558004768 active site 502558004769 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 502558004770 ScpA/B protein; Region: ScpA_ScpB; cl00598 502558004771 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 502558004772 active site 502558004773 putative substrate binding region [chemical binding]; other site 502558004774 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 502558004775 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 502558004776 homodimer interface [polypeptide binding]; other site 502558004777 substrate-cofactor binding pocket; other site 502558004778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558004779 catalytic residue [active] 502558004780 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 502558004781 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 502558004782 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 502558004783 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 502558004784 ABC transporter; Region: ABC_tran_2; pfam12848 502558004785 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 502558004786 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 502558004787 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 502558004788 DNA binding residues [nucleotide binding] 502558004789 putative dimer interface [polypeptide binding]; other site 502558004790 carbamate kinase; Reviewed; Region: PRK12686 502558004791 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 502558004792 putative substrate binding site [chemical binding]; other site 502558004793 nucleotide binding site [chemical binding]; other site 502558004794 nucleotide binding site [chemical binding]; other site 502558004795 homodimer interface [polypeptide binding]; other site 502558004796 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 502558004797 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 502558004798 transmembrane helices; other site 502558004799 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 502558004800 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 502558004801 putrescine carbamoyltransferase; Provisional; Region: PRK02255 502558004802 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 502558004803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004804 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 502558004805 DNA binding residues [nucleotide binding] 502558004806 dimerization interface [polypeptide binding]; other site 502558004807 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 502558004808 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 502558004809 active site 502558004810 catalytic tetrad [active] 502558004811 ferredoxin-like protein FixX; Provisional; Region: PRK15449 502558004812 oxidoreductase; Provisional; Region: PRK10015 502558004813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004814 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 502558004815 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 502558004816 Ligand Binding Site [chemical binding]; other site 502558004817 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 502558004818 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 502558004819 Ligand Binding Site [chemical binding]; other site 502558004820 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 502558004821 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 502558004822 transmembrane helices; other site 502558004823 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 502558004824 AMP-binding enzyme; Region: AMP-binding; cl15778 502558004825 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 502558004826 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558004827 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 502558004828 CoenzymeA binding site [chemical binding]; other site 502558004829 subunit interaction site [polypeptide binding]; other site 502558004830 PHB binding site; other site 502558004831 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 502558004832 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558004833 active site 502558004834 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558004835 Helix-turn-helix domains; Region: HTH; cl00088 502558004836 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 502558004837 enoyl-CoA hydratase; Provisional; Region: PRK06494 502558004838 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 502558004839 substrate binding site [chemical binding]; other site 502558004840 oxyanion hole (OAH) forming residues; other site 502558004841 trimer interface [polypeptide binding]; other site 502558004842 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 502558004843 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 502558004844 putative substrate translocation pore; other site 502558004845 enoyl-CoA hydratase; Region: PLN02864 502558004846 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 502558004847 active site 2 [active] 502558004848 active site 1 [active] 502558004849 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 502558004850 AMP-binding enzyme; Region: AMP-binding; cl15778 502558004851 AMP-binding enzyme; Region: AMP-binding; cl15778 502558004852 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 502558004853 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558004854 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 502558004855 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558004856 active site 502558004857 acetyl esterase; Provisional; Region: PRK10162 502558004858 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 502558004859 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 502558004860 putative substrate translocation pore; other site 502558004861 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558004862 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 502558004863 DNA binding residues [nucleotide binding] 502558004864 dimerization interface [polypeptide binding]; other site 502558004865 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 502558004866 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 502558004867 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558004868 active site 502558004869 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 502558004870 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558004871 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 502558004872 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 502558004873 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 502558004874 substrate binding site [chemical binding]; other site 502558004875 oxyanion hole (OAH) forming residues; other site 502558004876 trimer interface [polypeptide binding]; other site 502558004877 AMP-binding enzyme; Region: AMP-binding; cl15778 502558004878 AMP-binding enzyme; Region: AMP-binding; cl15778 502558004879 AMP-binding enzyme; Region: AMP-binding; cl15778 502558004880 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 502558004881 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 502558004882 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 502558004883 active site 502558004884 FMN binding site [chemical binding]; other site 502558004885 substrate binding site [chemical binding]; other site 502558004886 putative catalytic residue [active] 502558004887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004888 Helix-turn-helix domains; Region: HTH; cl00088 502558004889 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558004890 metal binding site [ion binding]; metal-binding site 502558004891 active site 502558004892 I-site; other site 502558004893 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558004894 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 502558004895 putative active site [active] 502558004896 heme pocket [chemical binding]; other site 502558004897 PAS fold; Region: PAS_3; pfam08447 502558004898 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 502558004899 PAS domain; Region: PAS_9; pfam13426 502558004900 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 502558004901 non-specific DNA binding site [nucleotide binding]; other site 502558004902 salt bridge; other site 502558004903 sequence-specific DNA binding site [nucleotide binding]; other site 502558004904 Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like; Region: ALDH_StaphAldA1; cd07117 502558004905 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 502558004906 NAD(P) binding site [chemical binding]; other site 502558004907 catalytic residues [active] 502558004908 2-isopropylmalate synthase; Validated; Region: PRK00915 502558004909 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 502558004910 active site 502558004911 catalytic residues [active] 502558004912 metal binding site [ion binding]; metal-binding site 502558004913 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 502558004914 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558004915 4Fe-4S binding domain; Region: Fer4; cl02805 502558004916 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558004917 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 502558004918 molybdopterin cofactor binding site; other site 502558004919 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558004920 molybdopterin cofactor binding site; other site 502558004921 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558004922 Helix-turn-helix domains; Region: HTH; cl00088 502558004923 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 502558004924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004925 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 502558004926 putative L-serine binding site [chemical binding]; other site 502558004927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004928 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 502558004929 NAD(P) binding site [chemical binding]; other site 502558004930 active site 502558004931 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 502558004932 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 502558004933 putative active site [active] 502558004934 putative FMN binding site [chemical binding]; other site 502558004935 putative substrate binding site [chemical binding]; other site 502558004936 putative catalytic residue [active] 502558004937 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 502558004938 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558004939 putative substrate translocation pore; other site 502558004940 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 502558004941 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558004942 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 502558004943 putative substrate translocation pore; other site 502558004944 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 502558004945 Ligand Binding Site [chemical binding]; other site 502558004946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004947 oxidoreductase; Provisional; Region: PRK10015 502558004948 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 502558004949 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 502558004950 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 502558004951 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 502558004952 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 502558004953 phosphate binding site [ion binding]; other site 502558004954 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 502558004955 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558004956 Helix-turn-helix domains; Region: HTH; cl00088 502558004957 ketol-acid reductoisomerase; Provisional; Region: PRK05479 502558004958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004959 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 502558004960 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 502558004961 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 502558004962 putative valine binding site [chemical binding]; other site 502558004963 dimer interface [polypeptide binding]; other site 502558004964 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 502558004965 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 502558004966 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 502558004967 PYR/PP interface [polypeptide binding]; other site 502558004968 dimer interface [polypeptide binding]; other site 502558004969 TPP binding site [chemical binding]; other site 502558004970 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 502558004971 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 502558004972 TPP-binding site [chemical binding]; other site 502558004973 dimer interface [polypeptide binding]; other site 502558004974 Dehydratase family; Region: ILVD_EDD; cl00340 502558004975 6-phosphogluconate dehydratase; Region: edd; TIGR01196 502558004976 Right handed beta helix region; Region: Beta_helix; pfam13229 502558004977 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 502558004978 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 502558004979 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 502558004980 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 502558004981 putative active site [active] 502558004982 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 502558004983 trimer interface [polypeptide binding]; other site 502558004984 putative metal binding site [ion binding]; other site 502558004985 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 502558004986 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 502558004987 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 502558004988 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 502558004989 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 502558004990 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 502558004991 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 502558004992 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 502558004993 HemK family putative methylases; Region: hemK_fam; TIGR00536 502558004994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558004995 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 502558004996 S-adenosylmethionine binding site [chemical binding]; other site 502558004997 Predicted ATPase [General function prediction only]; Region: COG4637 502558004998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558004999 Walker A/P-loop; other site 502558005000 ATP binding site [chemical binding]; other site 502558005001 peptide chain release factor 1; Validated; Region: prfA; PRK00591 502558005002 RF-1 domain; Region: RF-1; cl02875 502558005003 RF-1 domain; Region: RF-1; cl02875 502558005004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558005005 Helix-turn-helix domains; Region: HTH; cl00088 502558005006 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; cd05466 502558005007 dimerization interface [polypeptide binding]; other site 502558005008 hypothetical protein; Validated; Region: PRK07121 502558005009 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 502558005010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558005011 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 502558005012 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 502558005013 MatE; Region: MatE; cl10513 502558005014 MatE; Region: MatE; cl10513 502558005015 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 502558005016 DNA binding residues [nucleotide binding] 502558005017 dimer interface [polypeptide binding]; other site 502558005018 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 502558005019 DNA binding residues [nucleotide binding] 502558005020 dimerization interface [polypeptide binding]; other site 502558005021 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 502558005022 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558005023 molybdopterin cofactor binding site; other site 502558005024 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 502558005025 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558005026 4Fe-4S binding domain; Region: Fer4; cl02805 502558005027 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 502558005028 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 502558005029 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558005030 metal binding site [ion binding]; metal-binding site 502558005031 active site 502558005032 I-site; other site 502558005033 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558005034 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 502558005035 catalytic residues [active] 502558005036 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 502558005037 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 502558005038 active site 502558005039 nucleophile elbow; other site 502558005040 Ion transport protein; Region: Ion_trans; pfam00520 502558005041 Ion channel; Region: Ion_trans_2; cl11596 502558005042 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 502558005043 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 502558005044 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 502558005045 Sodium:solute symporter family; Region: SSF; cl00456 502558005046 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 502558005047 DNA binding residues [nucleotide binding] 502558005048 dimerization interface [polypeptide binding]; other site 502558005049 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 502558005050 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 502558005051 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 502558005052 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 502558005053 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 502558005054 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 502558005055 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 502558005056 active site 502558005057 dimer interface [polypeptide binding]; other site 502558005058 motif 1; other site 502558005059 motif 2; other site 502558005060 motif 3; other site 502558005061 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 502558005062 anticodon binding site; other site 502558005063 Double zinc ribbon; Region: DZR; pfam12773 502558005064 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 502558005065 non-specific DNA binding site [nucleotide binding]; other site 502558005066 salt bridge; other site 502558005067 sequence-specific DNA binding site [nucleotide binding]; other site 502558005068 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 502558005069 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 502558005070 active site 502558005071 HIGH motif; other site 502558005072 nucleotide binding site [chemical binding]; other site 502558005073 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 502558005074 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 502558005075 active site 502558005076 KMSKS motif; other site 502558005077 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 502558005078 tRNA binding surface [nucleotide binding]; other site 502558005079 anticodon binding site; other site 502558005080 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 502558005081 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 502558005082 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 502558005083 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 502558005084 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558005085 Walker A motif; other site 502558005086 ATP binding site [chemical binding]; other site 502558005087 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 502558005088 Clp protease; Region: CLP_protease; pfam00574 502558005089 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 502558005090 oligomer interface [polypeptide binding]; other site 502558005091 active site residues [active] 502558005092 trigger factor; Provisional; Region: tig; PRK01490 502558005093 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 502558005094 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 502558005095 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 502558005096 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 502558005097 putative metal binding site [ion binding]; other site 502558005098 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 502558005099 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 502558005100 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 502558005101 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 502558005102 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 502558005103 DNA binding residues [nucleotide binding] 502558005104 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 502558005105 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 502558005106 Walker A/P-loop; other site 502558005107 ATP binding site [chemical binding]; other site 502558005108 Q-loop/lid; other site 502558005109 ABC transporter signature motif; other site 502558005110 Walker B; other site 502558005111 D-loop; other site 502558005112 H-loop/switch region; other site 502558005113 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558005114 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 502558005115 active site 502558005116 phosphorylation site [posttranslational modification] 502558005117 intermolecular recognition site; other site 502558005118 dimerization interface [polypeptide binding]; other site 502558005119 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 502558005120 DNA binding site [nucleotide binding] 502558005121 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 502558005122 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 502558005123 dimer interface [polypeptide binding]; other site 502558005124 phosphorylation site [posttranslational modification] 502558005125 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 502558005126 ATP binding site [chemical binding]; other site 502558005127 Mg2+ binding site [ion binding]; other site 502558005128 G-X-G motif; other site 502558005129 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 502558005130 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 502558005131 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 502558005132 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 502558005133 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 502558005134 active site 502558005135 HIGH motif; other site 502558005136 KMSK motif region; other site 502558005137 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 502558005138 tRNA binding surface [nucleotide binding]; other site 502558005139 anticodon binding site; other site 502558005140 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 502558005141 Coenzyme A binding pocket [chemical binding]; other site 502558005142 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 502558005143 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 502558005144 carbamate kinase; Reviewed; Region: PRK12686 502558005145 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 502558005146 putative substrate binding site [chemical binding]; other site 502558005147 nucleotide binding site [chemical binding]; other site 502558005148 nucleotide binding site [chemical binding]; other site 502558005149 homodimer interface [polypeptide binding]; other site 502558005150 ornithine carbamoyltransferase; Validated; Region: PRK02102 502558005151 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 502558005152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558005153 Amidinotransferase; Region: Amidinotransf; cl12043 502558005154 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 502558005155 C-terminal domain interface [polypeptide binding]; other site 502558005156 GSH binding site (G-site) [chemical binding]; other site 502558005157 dimer interface [polypeptide binding]; other site 502558005158 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558005159 Helix-turn-helix domains; Region: HTH; cl00088 502558005160 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; cd05466 502558005161 dimerization interface [polypeptide binding]; other site 502558005162 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558005163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558005164 Helix-turn-helix domains; Region: HTH; cl00088 502558005165 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 502558005166 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 502558005167 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 502558005168 active site 502558005169 DNA binding site [nucleotide binding] 502558005170 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 502558005171 DNA binding site [nucleotide binding] 502558005172 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 502558005173 nucleotide binding site [chemical binding]; other site 502558005174 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 502558005175 active site 502558005176 dimerization interface [polypeptide binding]; other site 502558005177 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 502558005178 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 502558005179 putative deacylase active site [active] 502558005180 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 502558005181 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 502558005182 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 502558005183 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 502558005184 SmpB-tmRNA interface; other site 502558005185 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 502558005186 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 502558005187 oligomer interface [polypeptide binding]; other site 502558005188 active site 502558005189 metal binding site [ion binding]; metal-binding site 502558005190 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 502558005191 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 502558005192 active site 502558005193 homotetramer interface [polypeptide binding]; other site 502558005194 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 502558005195 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 502558005196 GIY-YIG motif/motif A; other site 502558005197 putative active site [active] 502558005198 putative metal binding site [ion binding]; other site 502558005199 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 502558005200 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 502558005201 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 502558005202 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 502558005203 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 502558005204 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 502558005205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558005206 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 502558005207 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558005208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558005209 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 502558005210 DNA binding residues [nucleotide binding] 502558005211 dimerization interface [polypeptide binding]; other site 502558005212 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 502558005213 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 502558005214 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 502558005215 active site 502558005216 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 502558005217 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 502558005218 nudix motif; other site 502558005219 Protein of unknown function (DUF523); Region: DUF523; cl00733 502558005220 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 502558005221 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558005222 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 502558005223 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 502558005224 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 502558005225 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 502558005226 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 502558005227 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 502558005228 dimer interface [polypeptide binding]; other site 502558005229 active site 502558005230 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 502558005231 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 502558005232 NAD(P) binding site [chemical binding]; other site 502558005233 homotetramer interface [polypeptide binding]; other site 502558005234 homodimer interface [polypeptide binding]; other site 502558005235 active site 502558005236 Acyl transferase domain; Region: Acyl_transf_1; cl08282 502558005237 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 502558005238 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 502558005239 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 502558005240 FMN binding site [chemical binding]; other site 502558005241 substrate binding site [chemical binding]; other site 502558005242 putative catalytic residue [active] 502558005243 Phosphopantetheine attachment site; Region: PP-binding; cl09936 502558005244 Helix-turn-helix domains; Region: HTH; cl00088 502558005245 ribonuclease R; Region: RNase_R; TIGR02063 502558005246 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 502558005247 RNB domain; Region: RNB; pfam00773 502558005248 RNB domain; Region: RNB; pfam00773 502558005249 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 502558005250 RNA binding site [nucleotide binding]; other site 502558005251 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 502558005252 protein binding site [polypeptide binding]; other site 502558005253 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 502558005254 Catalytic dyad [active] 502558005255 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 502558005256 FtsX-like permease family; Region: FtsX; cl15850 502558005257 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 502558005258 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558005259 Walker A/P-loop; other site 502558005260 ATP binding site [chemical binding]; other site 502558005261 Q-loop/lid; other site 502558005262 ABC transporter signature motif; other site 502558005263 Walker B; other site 502558005264 D-loop; other site 502558005265 H-loop/switch region; other site 502558005266 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 502558005267 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 502558005268 PYR/PP interface [polypeptide binding]; other site 502558005269 dimer interface [polypeptide binding]; other site 502558005270 TPP binding site [chemical binding]; other site 502558005271 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 502558005272 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 502558005273 TPP-binding site [chemical binding]; other site 502558005274 dimer interface [polypeptide binding]; other site 502558005275 peptide chain release factor 2; Validated; Region: prfB; PRK00578 502558005276 RF-1 domain; Region: RF-1; cl02875 502558005277 RF-1 domain; Region: RF-1; cl02875 502558005278 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 502558005279 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 502558005280 SEC-C motif; Region: SEC-C; pfam02810 502558005281 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 502558005282 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 502558005283 putative active site pocket [active] 502558005284 cleavage site 502558005285 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 502558005286 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 502558005287 Cl- selectivity filter; other site 502558005288 Cl- binding residues [ion binding]; other site 502558005289 pore gating glutamate residue; other site 502558005290 dimer interface [polypeptide binding]; other site 502558005291 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 502558005292 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 502558005293 Oligomerisation domain; Region: Oligomerisation; cl00519 502558005294 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 502558005295 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 502558005296 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 502558005297 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 502558005298 active site 502558005299 (T/H)XGH motif; other site 502558005300 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 502558005301 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 502558005302 putative catalytic cysteine [active] 502558005303 gamma-glutamyl kinase; Provisional; Region: PRK05429 502558005304 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 502558005305 nucleotide binding site [chemical binding]; other site 502558005306 homotetrameric interface [polypeptide binding]; other site 502558005307 putative phosphate binding site [ion binding]; other site 502558005308 putative allosteric binding site; other site 502558005309 PUA domain; Region: PUA; cl00607 502558005310 GTPase CgtA; Reviewed; Region: obgE; PRK12297 502558005311 GTP1/OBG; Region: GTP1_OBG; pfam01018 502558005312 Obg GTPase; Region: Obg; cd01898 502558005313 G1 box; other site 502558005314 GTP/Mg2+ binding site [chemical binding]; other site 502558005315 Switch I region; other site 502558005316 G2 box; other site 502558005317 G3 box; other site 502558005318 Switch II region; other site 502558005319 G4 box; other site 502558005320 G5 box; other site 502558005321 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 502558005322 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 502558005323 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 502558005324 DNA polymerase I; Provisional; Region: PRK05755 502558005325 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 502558005326 active site 502558005327 metal binding site 1 [ion binding]; metal-binding site 502558005328 putative 5' ssDNA interaction site; other site 502558005329 metal binding site 3; metal-binding site 502558005330 metal binding site 2 [ion binding]; metal-binding site 502558005331 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 502558005332 putative DNA binding site [nucleotide binding]; other site 502558005333 putative metal binding site [ion binding]; other site 502558005334 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 502558005335 active site 502558005336 DNA binding site [nucleotide binding] 502558005337 catalytic site [active] 502558005338 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 502558005339 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 502558005340 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 502558005341 Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: MetG; COG0143 502558005342 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 502558005343 active site 502558005344 HIGH motif; other site 502558005345 nucleotide binding site [chemical binding]; other site 502558005346 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 502558005347 KMSKS motif; other site 502558005348 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 502558005349 anticodon binding site; other site 502558005350 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 502558005351 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 502558005352 tandem repeat interface [polypeptide binding]; other site 502558005353 oligomer interface [polypeptide binding]; other site 502558005354 active site residues [active] 502558005355 transcription termination factor Rho; Provisional; Region: rho; PRK09376 502558005356 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 502558005357 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 502558005358 RNA binding site [nucleotide binding]; other site 502558005359 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 502558005360 multimer interface [polypeptide binding]; other site 502558005361 Walker A motif; other site 502558005362 ATP binding site [chemical binding]; other site 502558005363 Walker B motif; other site 502558005364 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 502558005365 active site 502558005366 intersubunit interactions; other site 502558005367 catalytic residue [active] 502558005368 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558005369 metal binding site [ion binding]; metal-binding site 502558005370 active site 502558005371 I-site; other site 502558005372 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558005373 PAS fold; Region: PAS_3; pfam08447 502558005374 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 502558005375 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 502558005376 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 502558005377 substrate binding site [chemical binding]; other site 502558005378 glutamase interaction surface [polypeptide binding]; other site 502558005379 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 502558005380 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 502558005381 catalytic residues [active] 502558005382 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 502558005383 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 502558005384 putative active site pocket [active] 502558005385 4-fold oligomerization interface [polypeptide binding]; other site 502558005386 metal binding residues [ion binding]; metal-binding site 502558005387 3-fold/trimer interface [polypeptide binding]; other site 502558005388 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 502558005389 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 502558005390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558005391 homodimer interface [polypeptide binding]; other site 502558005392 catalytic residue [active] 502558005393 histidinol dehydrogenase; Region: hisD; TIGR00069 502558005394 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 502558005395 NAD binding site [chemical binding]; other site 502558005396 dimerization interface [polypeptide binding]; other site 502558005397 product binding site; other site 502558005398 substrate binding site [chemical binding]; other site 502558005399 zinc binding site [ion binding]; other site 502558005400 catalytic residues [active] 502558005401 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 502558005402 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 502558005403 dimer interface [polypeptide binding]; other site 502558005404 motif 1; other site 502558005405 active site 502558005406 motif 3; other site 502558005407 ATP phosphoribosyltransferase; Region: HisG; cl15266 502558005408 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 502558005409 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 502558005410 ANTAR domain; Region: ANTAR; cl04297 502558005411 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 502558005412 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 502558005413 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 502558005414 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 502558005415 domain_subunit interface; other site 502558005416 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 502558005417 4Fe-4S binding domain; Region: Fer4; cl02805 502558005418 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 502558005419 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 502558005420 active site 502558005421 FMN binding site [chemical binding]; other site 502558005422 substrate binding site [chemical binding]; other site 502558005423 3Fe-4S cluster binding site [ion binding]; other site 502558005424 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 502558005425 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 502558005426 putative active site [active] 502558005427 Nitrogen regulatory protein P-II; Region: P-II; cl00412 502558005428 Nitrogen regulatory protein P-II; Region: P-II; smart00938 502558005429 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 502558005430 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 502558005431 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 502558005432 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 502558005433 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 502558005434 Catalytic site [active] 502558005435 active site 502558005436 UTP binding site [chemical binding]; other site 502558005437 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 502558005438 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 502558005439 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 502558005440 active site 502558005441 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 502558005442 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 502558005443 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 502558005444 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 502558005445 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 502558005446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558005447 homodimer interface [polypeptide binding]; other site 502558005448 catalytic residue [active] 502558005449 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 502558005450 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 502558005451 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 502558005452 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 502558005453 GatB domain; Region: GatB_Yqey; cl11497 502558005454 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 502558005455 Amidase; Region: Amidase; cl11426 502558005456 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 502558005457 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 502558005458 PemK-like protein; Region: PemK; cl00995 502558005459 Helix-turn-helix domains; Region: HTH; cl00088 502558005460 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 502558005461 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 502558005462 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 502558005463 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 502558005464 Protein of unknown function (DUF497); Region: DUF497; cl01108 502558005465 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 502558005466 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 502558005467 ATP binding site [chemical binding]; other site 502558005468 putative Mg++ binding site [ion binding]; other site 502558005469 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 502558005470 nucleotide binding region [chemical binding]; other site 502558005471 ATP-binding site [chemical binding]; other site 502558005472 RQC domain; Region: RQC; cl09632 502558005473 HRDC domain; Region: HRDC; cl02578 502558005474 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 502558005475 serpin-like protein; Provisional; Region: PHA02660 502558005476 reactive center loop; other site 502558005477 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 502558005478 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 502558005479 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_A; cd01299 502558005480 active site 502558005481 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 502558005482 Ligand Binding Site [chemical binding]; other site 502558005483 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 502558005484 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 502558005485 active site 502558005486 catalytic tetrad [active] 502558005487 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 502558005488 YARHG domain; Region: YARHG; pfam13308 502558005489 GTP-binding protein YchF; Reviewed; Region: PRK09601 502558005490 YchF GTPase; Region: YchF; cd01900 502558005491 G1 box; other site 502558005492 GTP/Mg2+ binding site [chemical binding]; other site 502558005493 Switch I region; other site 502558005494 G2 box; other site 502558005495 Switch II region; other site 502558005496 G3 box; other site 502558005497 G4 box; other site 502558005498 G5 box; other site 502558005499 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 502558005500 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 502558005501 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 502558005502 hypothetical protein; Validated; Region: PRK07121 502558005503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558005504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558005505 Helix-turn-helix domains; Region: HTH; cl00088 502558005506 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 502558005507 dimerization interface [polypeptide binding]; other site 502558005508 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 502558005509 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 502558005510 Ligand binding site; other site 502558005511 metal-binding site 502558005512 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 502558005513 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 502558005514 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 502558005515 Walker A motif; other site 502558005516 ATP binding site [chemical binding]; other site 502558005517 Walker B motif; other site 502558005518 arginine finger; other site 502558005519 Peptidase family M41; Region: Peptidase_M41; pfam01434 502558005520 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 502558005521 Helix-turn-helix domains; Region: HTH; cl00088 502558005522 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 502558005523 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 502558005524 Interdomain contacts; other site 502558005525 Cytokine receptor motif; other site 502558005526 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 502558005527 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 502558005528 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 502558005529 Interdomain contacts; other site 502558005530 Cytokine receptor motif; other site 502558005531 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 502558005532 Interdomain contacts; other site 502558005533 Cytokine receptor motif; other site 502558005534 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 502558005535 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 502558005536 Interdomain contacts; other site 502558005537 Cytokine receptor motif; other site 502558005538 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 502558005539 active site 502558005540 phosphorylation site [posttranslational modification] 502558005541 intermolecular recognition site; other site 502558005542 dimerization interface [polypeptide binding]; other site 502558005543 LytTr DNA-binding domain; Region: LytTR; cl04498 502558005544 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 502558005545 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 502558005546 ATP binding site [chemical binding]; other site 502558005547 Mg2+ binding site [ion binding]; other site 502558005548 G-X-G motif; other site 502558005549 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 502558005550 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558005551 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 502558005552 active site 502558005553 phosphorylation site [posttranslational modification] 502558005554 intermolecular recognition site; other site 502558005555 dimerization interface [polypeptide binding]; other site 502558005556 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 502558005557 DNA binding site [nucleotide binding] 502558005558 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 502558005559 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558005560 Walker A/P-loop; other site 502558005561 ATP binding site [chemical binding]; other site 502558005562 Q-loop/lid; other site 502558005563 ABC transporter signature motif; other site 502558005564 Walker B; other site 502558005565 D-loop; other site 502558005566 H-loop/switch region; other site 502558005567 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 502558005568 dimer interface [polypeptide binding]; other site 502558005569 phosphorylation site [posttranslational modification] 502558005570 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 502558005571 ATP binding site [chemical binding]; other site 502558005572 Mg2+ binding site [ion binding]; other site 502558005573 G-X-G motif; other site 502558005574 peroxiredoxin; Region: AhpC; TIGR03137 502558005575 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 502558005576 dimer interface [polypeptide binding]; other site 502558005577 decamer (pentamer of dimers) interface [polypeptide binding]; other site 502558005578 catalytic triad [active] 502558005579 peroxidatic and resolving cysteines [active] 502558005580 FeoA domain; Region: FeoA; cl00838 502558005581 GTP-binding protein Der; Reviewed; Region: PRK03003 502558005582 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 502558005583 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 502558005584 G1 box; other site 502558005585 GTP/Mg2+ binding site [chemical binding]; other site 502558005586 Switch I region; other site 502558005587 G2 box; other site 502558005588 G3 box; other site 502558005589 Switch II region; other site 502558005590 G4 box; other site 502558005591 G5 box; other site 502558005592 Nucleoside recognition; Region: Gate; cl00486 502558005593 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 502558005594 Nucleoside recognition; Region: Gate; cl00486 502558005595 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 502558005596 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558005597 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558005598 Walker A/P-loop; other site 502558005599 ATP binding site [chemical binding]; other site 502558005600 Q-loop/lid; other site 502558005601 ABC transporter signature motif; other site 502558005602 Walker B; other site 502558005603 D-loop; other site 502558005604 H-loop/switch region; other site 502558005605 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 502558005606 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558005607 The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd...; Region: ABCC_cytochrome_bd; cd03247 502558005608 Walker A/P-loop; other site 502558005609 ATP binding site [chemical binding]; other site 502558005610 Q-loop/lid; other site 502558005611 ABC transporter signature motif; other site 502558005612 Walker B; other site 502558005613 D-loop; other site 502558005614 H-loop/switch region; other site 502558005615 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 502558005616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558005617 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 502558005618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558005619 metal binding site [ion binding]; metal-binding site 502558005620 active site 502558005621 I-site; other site 502558005622 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 502558005623 Aegerolysin; Region: Aegerolysin; pfam06355 502558005624 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 502558005625 Protein of unknown function (DUF3232); Region: DUF3232; pfam11554 502558005626 histidyl-tRNA synthetase; Region: hisS; TIGR00442 502558005627 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 502558005628 dimer interface [polypeptide binding]; other site 502558005629 motif 1; other site 502558005630 active site 502558005631 motif 2; other site 502558005632 motif 3; other site 502558005633 stage V sporulation protein K; Region: spore_V_K; TIGR02881 502558005634 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 502558005635 Walker A motif; other site 502558005636 ATP binding site [chemical binding]; other site 502558005637 Walker B motif; other site 502558005638 arginine finger; other site 502558005639 stage V sporulation protein K; Region: spore_V_K; TIGR02881 502558005640 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 502558005641 Walker A motif; other site 502558005642 ATP binding site [chemical binding]; other site 502558005643 Walker B motif; other site 502558005644 arginine finger; other site 502558005645 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 502558005646 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 502558005647 active site 502558005648 metal binding site [ion binding]; metal-binding site 502558005649 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 502558005650 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 502558005651 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 502558005652 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 502558005653 active site 502558005654 dimer interface [polypeptide binding]; other site 502558005655 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 502558005656 Ligand Binding Site [chemical binding]; other site 502558005657 Molecular Tunnel; other site 502558005658 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 502558005659 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 502558005660 dimerization interface 3.5A [polypeptide binding]; other site 502558005661 active site 502558005662 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 502558005663 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 502558005664 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 502558005665 generic binding surface II; other site 502558005666 generic binding surface I; other site 502558005667 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 502558005668 non-specific DNA binding site [nucleotide binding]; other site 502558005669 salt bridge; other site 502558005670 sequence-specific DNA binding site [nucleotide binding]; other site 502558005671 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 502558005672 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 502558005673 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 502558005674 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 502558005675 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 502558005676 alpha subunit interaction interface [polypeptide binding]; other site 502558005677 Walker A motif; other site 502558005678 ATP binding site [chemical binding]; other site 502558005679 Walker B motif; other site 502558005680 inhibitor binding site; inhibition site 502558005681 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 502558005682 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 502558005683 ATP synthase; Region: ATP-synt; cl00365 502558005684 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 502558005685 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 502558005686 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 502558005687 beta subunit interaction interface [polypeptide binding]; other site 502558005688 Walker A motif; other site 502558005689 ATP binding site [chemical binding]; other site 502558005690 Walker B motif; other site 502558005691 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 502558005692 Plant ATP synthase F0; Region: YMF19; cl07975 502558005693 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 502558005694 Plant ATP synthase F0; Region: YMF19; cl07975 502558005695 ATP synthase subunit C; Region: ATP-synt_C; cl00466 502558005696 ATP synthase A chain; Region: ATP-synt_A; cl00413 502558005697 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 502558005698 catalytic motif [active] 502558005699 Zn binding site [ion binding]; other site 502558005700 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 502558005701 active site 502558005702 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 502558005703 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 502558005704 dimer interface [polypeptide binding]; other site 502558005705 active site 502558005706 glycine-pyridoxal phosphate binding site [chemical binding]; other site 502558005707 folate binding site [chemical binding]; other site 502558005708 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 502558005709 glycerol kinase; Provisional; Region: glpK; PRK00047 502558005710 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 502558005711 N- and C-terminal domain interface [polypeptide binding]; other site 502558005712 active site 502558005713 MgATP binding site [chemical binding]; other site 502558005714 catalytic site [active] 502558005715 metal binding site [ion binding]; metal-binding site 502558005716 glycerol binding site [chemical binding]; other site 502558005717 homotetramer interface [polypeptide binding]; other site 502558005718 homodimer interface [polypeptide binding]; other site 502558005719 FBP binding site [chemical binding]; other site 502558005720 protein IIAGlc interface [polypeptide binding]; other site 502558005721 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 502558005722 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 502558005723 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 502558005724 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 502558005725 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 502558005726 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 502558005727 Walker A/P-loop; other site 502558005728 ATP binding site [chemical binding]; other site 502558005729 Q-loop/lid; other site 502558005730 ABC transporter signature motif; other site 502558005731 Walker B; other site 502558005732 D-loop; other site 502558005733 H-loop/switch region; other site 502558005734 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 502558005735 Walker A/P-loop; other site 502558005736 ATP binding site [chemical binding]; other site 502558005737 Q-loop/lid; other site 502558005738 ABC transporter signature motif; other site 502558005739 Walker B; other site 502558005740 D-loop; other site 502558005741 H-loop/switch region; other site 502558005742 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 502558005743 DNA binding site [nucleotide binding] 502558005744 active site 502558005745 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 502558005746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558005747 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558005748 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 502558005749 flavoprotein, HI0933 family; Region: TIGR00275 502558005750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558005751 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 502558005752 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 502558005753 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 502558005754 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 502558005755 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 502558005756 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 502558005757 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 502558005758 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 502558005759 Walker A/P-loop; other site 502558005760 ATP binding site [chemical binding]; other site 502558005761 Q-loop/lid; other site 502558005762 ABC transporter signature motif; other site 502558005763 Walker B; other site 502558005764 D-loop; other site 502558005765 H-loop/switch region; other site 502558005766 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 502558005767 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 502558005768 Walker A/P-loop; other site 502558005769 ATP binding site [chemical binding]; other site 502558005770 Q-loop/lid; other site 502558005771 ABC transporter signature motif; other site 502558005772 Walker B; other site 502558005773 D-loop; other site 502558005774 H-loop/switch region; other site 502558005775 Cobalt transport protein; Region: CbiQ; cl00463 502558005776 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 502558005777 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 502558005778 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 502558005779 non-specific DNA binding site [nucleotide binding]; other site 502558005780 salt bridge; other site 502558005781 sequence-specific DNA binding site [nucleotide binding]; other site 502558005782 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558005783 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 502558005784 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 502558005785 dimerization interface [polypeptide binding]; other site 502558005786 DNA binding residues [nucleotide binding] 502558005787 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 502558005788 Protein export membrane protein; Region: SecD_SecF; cl14618 502558005789 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 502558005790 Protein export membrane protein; Region: SecD_SecF; cl14618 502558005791 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 502558005792 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 502558005793 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 502558005794 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 502558005795 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 502558005796 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 502558005797 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 502558005798 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 502558005799 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 502558005800 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 502558005801 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 502558005802 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 502558005803 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558005804 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 502558005805 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558005806 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 502558005807 active site 502558005808 phosphorylation site [posttranslational modification] 502558005809 intermolecular recognition site; other site 502558005810 dimerization interface [polypeptide binding]; other site 502558005811 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 502558005812 DNA binding site [nucleotide binding] 502558005813 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 502558005814 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 502558005815 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 502558005816 dimer interface [polypeptide binding]; other site 502558005817 phosphorylation site [posttranslational modification] 502558005818 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 502558005819 ATP binding site [chemical binding]; other site 502558005820 Mg2+ binding site [ion binding]; other site 502558005821 G-X-G motif; other site 502558005822 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 502558005823 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 502558005824 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 502558005825 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 502558005826 DNA-binding site [nucleotide binding]; DNA binding site 502558005827 RNA-binding motif; other site 502558005828 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12835 502558005829 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 502558005830 Helix-turn-helix domains; Region: HTH; cl00088 502558005831 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 502558005832 dimerization interface [polypeptide binding]; other site 502558005833 substrate binding pocket [chemical binding]; other site 502558005834 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 502558005835 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 502558005836 Walker A motif; other site 502558005837 ATP binding site [chemical binding]; other site 502558005838 Walker B motif; other site 502558005839 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 502558005840 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 502558005841 RuvA N terminal domain; Region: RuvA_N; pfam01330 502558005842 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 502558005843 active site 502558005844 putative DNA-binding cleft [nucleotide binding]; other site 502558005845 dimer interface [polypeptide binding]; other site 502558005846 Transcriptional regulator; Region: Transcrip_reg; cl00361 502558005847 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 502558005848 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 502558005849 heme binding site [chemical binding]; other site 502558005850 ferroxidase pore; other site 502558005851 ferroxidase diiron center [ion binding]; other site 502558005852 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 502558005853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558005854 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 502558005855 L-serine binding site [chemical binding]; other site 502558005856 ACT domain interface; other site 502558005857 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558005858 Helix-turn-helix domains; Region: HTH; cl00088 502558005859 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; cd05466 502558005860 dimerization interface [polypeptide binding]; other site 502558005861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558005862 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558005863 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 502558005864 active site 502558005865 oxyanion hole [active] 502558005866 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 502558005867 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 502558005868 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 502558005869 trimer interface [polypeptide binding]; other site 502558005870 dimer interface [polypeptide binding]; other site 502558005871 putative active site [active] 502558005872 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 502558005873 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 502558005874 FeS/SAM binding site; other site 502558005875 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 502558005876 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 502558005877 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558005878 Walker A/P-loop; other site 502558005879 ATP binding site [chemical binding]; other site 502558005880 Q-loop/lid; other site 502558005881 ABC transporter signature motif; other site 502558005882 Walker B; other site 502558005883 D-loop; other site 502558005884 H-loop/switch region; other site 502558005885 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 502558005886 dimer interface [polypeptide binding]; other site 502558005887 conserved gate region; other site 502558005888 putative PBP binding loops; other site 502558005889 ABC-ATPase subunit interface; other site 502558005890 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 502558005891 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 502558005892 enoyl-CoA hydratase; Provisional; Region: PRK08252 502558005893 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 502558005894 substrate binding site [chemical binding]; other site 502558005895 oxyanion hole (OAH) forming residues; other site 502558005896 trimer interface [polypeptide binding]; other site 502558005897 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 502558005898 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 502558005899 Walker A/P-loop; other site 502558005900 ATP binding site [chemical binding]; other site 502558005901 Q-loop/lid; other site 502558005902 ABC transporter signature motif; other site 502558005903 Walker B; other site 502558005904 D-loop; other site 502558005905 H-loop/switch region; other site 502558005906 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 502558005907 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 502558005908 Walker A/P-loop; other site 502558005909 ATP binding site [chemical binding]; other site 502558005910 Q-loop/lid; other site 502558005911 ABC transporter signature motif; other site 502558005912 Walker B; other site 502558005913 D-loop; other site 502558005914 H-loop/switch region; other site 502558005915 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 502558005916 dimer interface [polypeptide binding]; other site 502558005917 conserved gate region; other site 502558005918 putative PBP binding loops; other site 502558005919 ABC-ATPase subunit interface; other site 502558005920 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 502558005921 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 502558005922 dimer interface [polypeptide binding]; other site 502558005923 conserved gate region; other site 502558005924 putative PBP binding loops; other site 502558005925 ABC-ATPase subunit interface; other site 502558005926 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 502558005927 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 502558005928 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 502558005929 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 502558005930 nucleotide binding pocket [chemical binding]; other site 502558005931 K-X-D-G motif; other site 502558005932 catalytic site [active] 502558005933 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 502558005934 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 502558005935 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 502558005936 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 502558005937 Dimer interface [polypeptide binding]; other site 502558005938 BRCT sequence motif; other site 502558005939 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 502558005940 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 502558005941 putative substrate binding site [chemical binding]; other site 502558005942 putative ATP binding site [chemical binding]; other site 502558005943 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 502558005944 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 502558005945 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 502558005946 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558005947 active site 502558005948 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 502558005949 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 502558005950 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 502558005951 glutaminase active site [active] 502558005952 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 502558005953 dimer interface [polypeptide binding]; other site 502558005954 active site 502558005955 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 502558005956 dimer interface [polypeptide binding]; other site 502558005957 active site 502558005958 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 502558005959 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 502558005960 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 502558005961 active site 502558005962 FMN binding site [chemical binding]; other site 502558005963 substrate binding site [chemical binding]; other site 502558005964 putative catalytic residue [active] 502558005965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558005966 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 502558005967 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 502558005968 dimer interface [polypeptide binding]; other site 502558005969 active site 502558005970 metal binding site [ion binding]; metal-binding site 502558005971 glutathione binding site [chemical binding]; other site 502558005972 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 502558005973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558005974 Q-loop/lid; other site 502558005975 ABC transporter signature motif; other site 502558005976 Walker B; other site 502558005977 D-loop; other site 502558005978 LytTr DNA-binding domain; Region: LytTR; cl04498 502558005979 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 502558005980 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 502558005981 Walker A/P-loop; other site 502558005982 ATP binding site [chemical binding]; other site 502558005983 Q-loop/lid; other site 502558005984 ABC transporter signature motif; other site 502558005985 Walker B; other site 502558005986 D-loop; other site 502558005987 H-loop/switch region; other site 502558005988 ABC-2 type transporter; Region: ABC2_membrane; cl11417 502558005989 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 502558005990 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 502558005991 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 502558005992 elongation factor G; Reviewed; Region: PRK12740 502558005993 G1 box; other site 502558005994 putative GEF interaction site [polypeptide binding]; other site 502558005995 GTP/Mg2+ binding site [chemical binding]; other site 502558005996 Switch I region; other site 502558005997 G2 box; other site 502558005998 G3 box; other site 502558005999 Switch II region; other site 502558006000 G4 box; other site 502558006001 G5 box; other site 502558006002 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 502558006003 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 502558006004 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 502558006005 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 502558006006 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 502558006007 FtsX-like permease family; Region: FtsX; cl15850 502558006008 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 502558006009 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 502558006010 Walker A/P-loop; other site 502558006011 ATP binding site [chemical binding]; other site 502558006012 Q-loop/lid; other site 502558006013 ABC transporter signature motif; other site 502558006014 Walker B; other site 502558006015 D-loop; other site 502558006016 H-loop/switch region; other site 502558006017 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 502558006018 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 502558006019 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 502558006020 hypothetical protein; Validated; Region: PRK07121 502558006021 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 502558006022 DNA binding residues [nucleotide binding] 502558006023 dimerization interface [polypeptide binding]; other site 502558006024 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 502558006025 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 502558006026 DNA binding residues [nucleotide binding] 502558006027 dimerization interface [polypeptide binding]; other site 502558006028 hypothetical protein; Validated; Region: PRK07121 502558006029 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 502558006030 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 502558006031 dimer interface [polypeptide binding]; other site 502558006032 motif 1; other site 502558006033 active site 502558006034 motif 2; other site 502558006035 motif 3; other site 502558006036 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 502558006037 anticodon binding site; other site 502558006038 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 502558006039 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 502558006040 Walker A/P-loop; other site 502558006041 ATP binding site [chemical binding]; other site 502558006042 Q-loop/lid; other site 502558006043 ABC transporter signature motif; other site 502558006044 Walker B; other site 502558006045 D-loop; other site 502558006046 H-loop/switch region; other site 502558006047 ABC-2 type transporter; Region: ABC2_membrane; cl11417 502558006048 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558006049 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 502558006050 active site 502558006051 phosphorylation site [posttranslational modification] 502558006052 intermolecular recognition site; other site 502558006053 dimerization interface [polypeptide binding]; other site 502558006054 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 502558006055 DNA binding site [nucleotide binding] 502558006056 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 502558006057 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 502558006058 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 502558006059 dimer interface [polypeptide binding]; other site 502558006060 phosphorylation site [posttranslational modification] 502558006061 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 502558006062 ATP binding site [chemical binding]; other site 502558006063 Mg2+ binding site [ion binding]; other site 502558006064 G-X-G motif; other site 502558006065 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 502558006066 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 502558006067 TPR motif; other site 502558006068 binding surface 502558006069 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 502558006070 Helix-turn-helix domains; Region: HTH; cl00088 502558006071 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 502558006072 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 502558006073 tetramer interface [polypeptide binding]; other site 502558006074 heme binding pocket [chemical binding]; other site 502558006075 NADPH binding site [chemical binding]; other site 502558006076 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 502558006077 tartrate dehydrogenase; Provisional; Region: PRK08194 502558006078 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 502558006079 substrate binding site [chemical binding]; other site 502558006080 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 502558006081 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 502558006082 substrate binding site [chemical binding]; other site 502558006083 ligand binding site [chemical binding]; other site 502558006084 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 502558006085 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 502558006086 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 502558006087 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 502558006088 substrate binding pocket [chemical binding]; other site 502558006089 chain length determination region; other site 502558006090 substrate-Mg2+ binding site; other site 502558006091 catalytic residues [active] 502558006092 aspartate-rich region 1; other site 502558006093 active site lid residues [active] 502558006094 aspartate-rich region 2; other site 502558006095 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 502558006096 Septum formation initiator; Region: DivIC; cl11433 502558006097 Helix-turn-helix domains; Region: HTH; cl00088 502558006098 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 502558006099 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 502558006100 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 502558006101 G1 box; other site 502558006102 GTP/Mg2+ binding site [chemical binding]; other site 502558006103 Switch I region; other site 502558006104 G2 box; other site 502558006105 G3 box; other site 502558006106 Switch II region; other site 502558006107 G4 box; other site 502558006108 G5 box; other site 502558006109 Nucleoside recognition; Region: Gate; cl00486 502558006110 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 502558006111 Nucleoside recognition; Region: Gate; cl00486 502558006112 FeoA domain; Region: FeoA; cl00838 502558006113 FeoA domain; Region: FeoA; cl00838 502558006114 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 502558006115 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 502558006116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558006117 catalytic residue [active] 502558006118 Helix-turn-helix domains; Region: HTH; cl00088 502558006119 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 502558006120 Polysulphide reductase, NrfD; Region: NrfD; cl01295 502558006121 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558006122 4Fe-4S binding domain; Region: Fer4; cl02805 502558006123 tetrathionate reductase subunit A; Provisional; Region: PRK14991 502558006124 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 502558006125 putative [Fe4-S4] binding site [ion binding]; other site 502558006126 putative molybdopterin cofactor binding site [chemical binding]; other site 502558006127 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558006128 molybdopterin cofactor binding site; other site 502558006129 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 502558006130 DNA binding residues [nucleotide binding] 502558006131 dimerization interface [polypeptide binding]; other site 502558006132 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 502558006133 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 502558006134 active site 502558006135 phosphorylation site [posttranslational modification] 502558006136 intermolecular recognition site; other site 502558006137 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 502558006138 DNA binding residues [nucleotide binding] 502558006139 dimerization interface [polypeptide binding]; other site 502558006140 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 502558006141 Histidine kinase; Region: HisKA_3; pfam07730 502558006142 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 502558006143 ATP binding site [chemical binding]; other site 502558006144 Mg2+ binding site [ion binding]; other site 502558006145 G-X-G motif; other site 502558006146 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 502558006147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558006148 Walker A/P-loop; other site 502558006149 ATP binding site [chemical binding]; other site 502558006150 Q-loop/lid; other site 502558006151 ABC transporter signature motif; other site 502558006152 Walker B; other site 502558006153 D-loop; other site 502558006154 H-loop/switch region; other site 502558006155 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 502558006156 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 502558006157 ABC-2 type transporter; Region: ABC2_membrane; cl11417 502558006158 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 502558006159 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 502558006160 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 502558006161 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 502558006162 ATP binding site [chemical binding]; other site 502558006163 Walker A motif; other site 502558006164 hexamer interface [polypeptide binding]; other site 502558006165 Walker B motif; other site 502558006166 AAA domain; Region: AAA_31; pfam13614 502558006167 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558006168 SAF domain; Region: SAF; cl00555 502558006169 Predicted membrane protein [Function unknown]; Region: COG2364 502558006170 Acetokinase family; Region: Acetate_kinase; cl01029 502558006171 propionate/acetate kinase; Provisional; Region: PRK12379 502558006172 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 502558006173 4Fe-4S binding domain; Region: Fer4; cl02805 502558006174 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 502558006175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006176 hypothetical protein; Validated; Region: PRK07121 502558006177 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 502558006178 DNA binding residues [nucleotide binding] 502558006179 dimerization interface [polypeptide binding]; other site 502558006180 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 502558006181 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 502558006182 HI0933-like protein; Region: HI0933_like; pfam03486 502558006183 hypothetical protein; Validated; Region: PRK07121 502558006184 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 502558006185 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 502558006186 DNA binding residues [nucleotide binding] 502558006187 dimerization interface [polypeptide binding]; other site 502558006188 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 502558006189 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558006190 Helix-turn-helix domains; Region: HTH; cl00088 502558006191 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; cd05466 502558006192 dimerization interface [polypeptide binding]; other site 502558006193 FAD binding domain; Region: FAD_binding_2; pfam00890 502558006194 hypothetical protein; Validated; Region: PRK07121 502558006195 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558006196 metal binding site [ion binding]; metal-binding site 502558006197 active site 502558006198 I-site; other site 502558006199 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558006200 PAS domain S-box; Region: sensory_box; TIGR00229 502558006201 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 502558006202 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558006203 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 502558006204 putative molybdopterin cofactor binding site; other site 502558006205 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558006206 molybdopterin cofactor binding site; other site 502558006207 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558006208 Polysulphide reductase, NrfD; Region: NrfD; cl01295 502558006209 tetrathionate reductase subunit B; Provisional; Region: PRK14993 502558006210 4Fe-4S binding domain; Region: Fer4; cl02805 502558006211 Polysulphide reductase, NrfD; Region: NrfD; cl01295 502558006212 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558006213 4Fe-4S binding domain; Region: Fer4; cl02805 502558006214 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 502558006215 thiosulfate reductase PhsA; Provisional; Region: PRK15488 502558006216 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 502558006217 putative [Fe4-S4] binding site [ion binding]; other site 502558006218 putative molybdopterin cofactor binding site [chemical binding]; other site 502558006219 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558006220 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 502558006221 putative molybdopterin cofactor binding site; other site 502558006222 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 502558006223 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 502558006224 DNA binding residues [nucleotide binding] 502558006225 dimerization interface [polypeptide binding]; other site 502558006226 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 502558006227 putative active site [active] 502558006228 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 502558006229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006230 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 502558006231 DNA binding residues [nucleotide binding] 502558006232 dimerization interface [polypeptide binding]; other site 502558006233 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 502558006234 active site 502558006235 FMN binding site [chemical binding]; other site 502558006236 substrate binding site [chemical binding]; other site 502558006237 putative catalytic residue [active] 502558006238 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 502558006239 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 502558006240 tetramer interface [polypeptide binding]; other site 502558006241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558006242 catalytic residue [active] 502558006243 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 502558006244 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 502558006245 HIGH motif; other site 502558006246 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 502558006247 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 502558006248 active site 502558006249 KMSKS motif; other site 502558006250 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 502558006251 tRNA binding surface [nucleotide binding]; other site 502558006252 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 502558006253 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 502558006254 DNA binding residues [nucleotide binding] 502558006255 dimerization interface [polypeptide binding]; other site 502558006256 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006257 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 502558006258 putative active site [active] 502558006259 metal binding site [ion binding]; metal-binding site 502558006260 hypothetical protein; Validated; Region: PRK07121 502558006261 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 502558006262 DNA binding residues [nucleotide binding] 502558006263 dimerization interface [polypeptide binding]; other site 502558006264 Protein of unknown function (DUF328); Region: DUF328; cl01143 502558006265 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 502558006266 Divergent AAA domain; Region: AAA_4; pfam04326 502558006267 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 502558006268 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 502558006269 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 502558006270 TPP-binding site [chemical binding]; other site 502558006271 putative dimer interface [polypeptide binding]; other site 502558006272 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 502558006273 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 502558006274 dimer interface [polypeptide binding]; other site 502558006275 PYR/PP interface [polypeptide binding]; other site 502558006276 TPP binding site [chemical binding]; other site 502558006277 substrate binding site [chemical binding]; other site 502558006278 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 502558006279 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 502558006280 pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional; Region: PRK14028 502558006281 4Fe-4S binding domain; Region: Fer4; cl02805 502558006282 4Fe-4S binding domain; Region: Fer4; cl02805 502558006283 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; cd05466 502558006284 dimerization interface [polypeptide binding]; other site 502558006285 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 502558006286 AMP-binding enzyme; Region: AMP-binding; cl15778 502558006287 MatE; Region: MatE; cl10513 502558006288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558006289 Helix-turn-helix domains; Region: HTH; cl00088 502558006290 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; cd05466 502558006291 dimerization interface [polypeptide binding]; other site 502558006292 VanW like protein; Region: VanW; pfam04294 502558006293 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 502558006294 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 502558006295 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_2; cd04602 502558006296 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 502558006297 active site 502558006298 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 502558006299 DNA binding residues [nucleotide binding] 502558006300 dimerization interface [polypeptide binding]; other site 502558006301 FMN-binding domain; Region: FMN_bind; cl01081 502558006302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006303 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006304 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 502558006305 Divergent AAA domain; Region: AAA_4; pfam04326 502558006306 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 502558006307 Helix-turn-helix domains; Region: HTH; cl00088 502558006308 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006309 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 502558006310 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 502558006311 DNA binding residues [nucleotide binding] 502558006312 dimerization interface [polypeptide binding]; other site 502558006313 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 502558006314 sequence-specific DNA binding site [nucleotide binding]; other site 502558006315 salt bridge; other site 502558006316 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 502558006317 ApbE family; Region: ApbE; cl00643 502558006318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006319 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 502558006320 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 502558006321 oligomer interface [polypeptide binding]; other site 502558006322 putative active site [active] 502558006323 metal binding site [ion binding]; metal-binding site 502558006324 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 502558006325 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 502558006326 Walker A/P-loop; other site 502558006327 ATP binding site [chemical binding]; other site 502558006328 Q-loop/lid; other site 502558006329 ABC transporter signature motif; other site 502558006330 Walker B; other site 502558006331 D-loop; other site 502558006332 H-loop/switch region; other site 502558006333 FtsX-like permease family; Region: FtsX; cl15850 502558006334 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 502558006335 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 502558006336 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 502558006337 Rubrerythrin [Energy production and conversion]; Region: COG1592 502558006338 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 502558006339 binuclear metal center [ion binding]; other site 502558006340 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 502558006341 iron binding site [ion binding]; other site 502558006342 FMN-binding domain; Region: FMN_bind; cl01081 502558006343 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006344 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 502558006345 DNA binding residues [nucleotide binding] 502558006346 dimerization interface [polypeptide binding]; other site 502558006347 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 502558006348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 502558006349 DNA-binding site [nucleotide binding]; DNA binding site 502558006350 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 502558006351 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 502558006352 4Fe-4S binding domain; Region: Fer4; cl02805 502558006353 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558006354 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 502558006355 molybdopterin cofactor binding site; other site 502558006356 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558006357 molybdopterin cofactor binding site; other site 502558006358 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 502558006359 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 502558006360 Catalytic site; other site 502558006361 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 502558006362 active site 502558006363 metal binding site [ion binding]; metal-binding site 502558006364 homotetramer interface [polypeptide binding]; other site 502558006365 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 502558006366 putative dimer interface [polypeptide binding]; other site 502558006367 NAD-dependent deacetylase; Provisional; Region: PRK00481 502558006368 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 502558006369 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 502558006370 dimer interface [polypeptide binding]; other site 502558006371 ADP-ribose binding site [chemical binding]; other site 502558006372 active site 502558006373 nudix motif; other site 502558006374 metal binding site [ion binding]; metal-binding site 502558006375 Isochorismatase family; Region: Isochorismatase; pfam00857 502558006376 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 502558006377 catalytic triad [active] 502558006378 conserved cis-peptide bond; other site 502558006379 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 502558006380 Zn2+ binding site [ion binding]; other site 502558006381 Mg2+ binding site [ion binding]; other site 502558006382 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 502558006383 Zn2+ binding site [ion binding]; other site 502558006384 Mg2+ binding site [ion binding]; other site 502558006385 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 502558006386 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 502558006387 Helix-turn-helix domains; Region: HTH; cl00088 502558006388 Helix-turn-helix domains; Region: HTH; cl00088 502558006389 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 502558006390 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 502558006391 active site 502558006392 catalytic residues [active] 502558006393 metal binding site [ion binding]; metal-binding site 502558006394 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 502558006395 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 502558006396 homodimer interface [polypeptide binding]; other site 502558006397 substrate-cofactor binding pocket; other site 502558006398 catalytic residue [active] 502558006399 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 502558006400 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 502558006401 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 502558006402 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558006403 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 502558006404 DNA binding residues [nucleotide binding] 502558006405 dimerization interface [polypeptide binding]; other site 502558006406 hypothetical protein; Validated; Region: PRK07121 502558006407 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 502558006408 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 502558006409 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 502558006410 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 502558006411 classical (c) SDRs; Region: SDR_c; cd05233 502558006412 NAD(P) binding site [chemical binding]; other site 502558006413 active site 502558006414 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 502558006415 classical (c) SDRs; Region: SDR_c; cd05233 502558006416 NAD(P) binding site [chemical binding]; other site 502558006417 active site 502558006418 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 502558006419 classical (c) SDRs; Region: SDR_c; cd05233 502558006420 NAD(P) binding site [chemical binding]; other site 502558006421 active site 502558006422 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 502558006423 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 502558006424 putative substrate translocation pore; other site 502558006425 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 502558006426 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 502558006427 active site 502558006428 FMN binding site [chemical binding]; other site 502558006429 substrate binding site [chemical binding]; other site 502558006430 putative catalytic residue [active] 502558006431 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 502558006432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006433 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 502558006434 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 502558006435 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 502558006436 active site 502558006437 FMN binding site [chemical binding]; other site 502558006438 substrate binding site [chemical binding]; other site 502558006439 putative catalytic residue [active] 502558006440 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 502558006441 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 502558006442 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 502558006443 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 502558006444 metabolite-proton symporter; Region: 2A0106; TIGR00883 502558006445 putative substrate translocation pore; other site 502558006446 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 502558006447 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 502558006448 Helix-turn-helix domains; Region: HTH; cl00088 502558006449 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 502558006450 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 502558006451 23S rRNA interface [nucleotide binding]; other site 502558006452 L3 interface [polypeptide binding]; other site 502558006453 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 502558006454 putative succinate dehydrogenase; Reviewed; Region: PRK12842 502558006455 two component system sensor kinase SsrB; Provisional; Region: PRK15369 502558006456 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 502558006457 DNA binding residues [nucleotide binding] 502558006458 dimerization interface [polypeptide binding]; other site 502558006459 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 502558006460 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 502558006461 homodimer interface [polypeptide binding]; other site 502558006462 substrate-cofactor binding pocket; other site 502558006463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558006464 catalytic residue [active] 502558006465 Homoserine O-succinyltransferase; Region: HTS; pfam04204 502558006466 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 502558006467 proposed active site lysine [active] 502558006468 conserved cys residue [active] 502558006469 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558006470 Helix-turn-helix domains; Region: HTH; cl00088 502558006471 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; cd05466 502558006472 dimerization interface [polypeptide binding]; other site 502558006473 hypothetical protein; Validated; Region: PRK07121 502558006474 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 502558006475 Fic/DOC family; Region: Fic; cl00960 502558006476 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 502558006477 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 502558006478 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 502558006479 motif II; other site 502558006480 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 502558006481 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 502558006482 active site 502558006483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006484 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006485 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 502558006486 DNA binding residues [nucleotide binding] 502558006487 dimerization interface [polypeptide binding]; other site 502558006488 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 502558006489 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 502558006490 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 502558006491 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 502558006492 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 502558006493 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 502558006494 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 502558006495 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 502558006496 HSP70 interaction site [polypeptide binding]; other site 502558006497 TFIIH C1-like domain; Region: C1_4; cl06838 502558006498 homoserine dehydrogenase; Provisional; Region: PRK06349 502558006499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006500 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 502558006501 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 502558006502 diaminopimelate decarboxylase; Region: lysA; TIGR01048 502558006503 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 502558006504 active site 502558006505 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 502558006506 substrate binding site [chemical binding]; other site 502558006507 catalytic residues [active] 502558006508 dimer interface [polypeptide binding]; other site 502558006509 Polysulphide reductase, NrfD; Region: NrfD; cl01295 502558006510 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 502558006511 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 502558006512 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006514 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 502558006515 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 502558006516 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006517 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 502558006518 DNA binding residues [nucleotide binding] 502558006519 dimerization interface [polypeptide binding]; other site 502558006520 adenylate kinase; Reviewed; Region: adk; PRK00279 502558006521 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 502558006522 AMP-binding site [chemical binding]; other site 502558006523 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 502558006524 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 502558006525 SecY translocase; Region: SecY; pfam00344 502558006526 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 502558006527 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 502558006528 23S rRNA binding site [nucleotide binding]; other site 502558006529 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 502558006530 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 502558006531 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 502558006532 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 502558006533 5S rRNA interface [nucleotide binding]; other site 502558006534 L27 interface [polypeptide binding]; other site 502558006535 23S rRNA interface [nucleotide binding]; other site 502558006536 L5 interface [polypeptide binding]; other site 502558006537 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 502558006538 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 502558006539 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 502558006540 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 502558006541 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 502558006542 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 502558006543 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 502558006544 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 502558006545 KOW motif; Region: KOW; cl00354 502558006546 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 502558006547 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 502558006548 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 502558006549 23S rRNA interface [nucleotide binding]; other site 502558006550 putative translocon interaction site; other site 502558006551 signal recognition particle (SRP54) interaction site; other site 502558006552 L23 interface [polypeptide binding]; other site 502558006553 trigger factor interaction site; other site 502558006554 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 502558006555 23S rRNA interface [nucleotide binding]; other site 502558006556 5S rRNA interface [nucleotide binding]; other site 502558006557 putative antibiotic binding site [chemical binding]; other site 502558006558 L25 interface [polypeptide binding]; other site 502558006559 L27 interface [polypeptide binding]; other site 502558006560 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 502558006561 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 502558006562 G-X-X-G motif; other site 502558006563 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 502558006564 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 502558006565 putative translocon binding site; other site 502558006566 protein-rRNA interface [nucleotide binding]; other site 502558006567 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 502558006568 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 502558006569 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 502558006570 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 502558006571 trigger factor; Region: tig; TIGR00115 502558006572 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 502558006573 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 502558006574 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 502558006575 Bacterial type III secretion protein (HrpB7); Region: HrpB7; cl09720 502558006576 FtsX-like permease family; Region: FtsX; cl15850 502558006577 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 502558006578 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 502558006579 FtsX-like permease family; Region: FtsX; cl15850 502558006580 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 502558006581 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 502558006582 Walker A/P-loop; other site 502558006583 ATP binding site [chemical binding]; other site 502558006584 Q-loop/lid; other site 502558006585 ABC transporter signature motif; other site 502558006586 Walker B; other site 502558006587 D-loop; other site 502558006588 H-loop/switch region; other site 502558006589 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 502558006590 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 502558006591 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 502558006592 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 502558006593 elongation factor G; Reviewed; Region: PRK00007 502558006594 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 502558006595 G1 box; other site 502558006596 putative GEF interaction site [polypeptide binding]; other site 502558006597 GTP/Mg2+ binding site [chemical binding]; other site 502558006598 Switch I region; other site 502558006599 G2 box; other site 502558006600 G3 box; other site 502558006601 Switch II region; other site 502558006602 G4 box; other site 502558006603 G5 box; other site 502558006604 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 502558006605 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 502558006606 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 502558006607 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 502558006608 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 502558006609 S17 interaction site [polypeptide binding]; other site 502558006610 S8 interaction site; other site 502558006611 16S rRNA interaction site [nucleotide binding]; other site 502558006612 streptomycin interaction site [chemical binding]; other site 502558006613 23S rRNA interaction site [nucleotide binding]; other site 502558006614 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 502558006615 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 502558006616 peptidase T-like protein; Region: PepT-like; TIGR01883 502558006617 metal binding site [ion binding]; metal-binding site 502558006618 putative dimer interface [polypeptide binding]; other site 502558006619 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 502558006620 FMN binding site [chemical binding]; other site 502558006621 dimer interface [polypeptide binding]; other site 502558006622 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006623 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 502558006624 DNA binding residues [nucleotide binding] 502558006625 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 502558006626 FOG: CBS domain [General function prediction only]; Region: COG0517 502558006627 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 502558006628 DHH family; Region: DHH; pfam01368 502558006629 DHHA2 domain; Region: DHHA2; pfam02833 502558006630 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 502558006631 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 502558006632 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 502558006633 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 502558006634 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 502558006635 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 502558006636 DNA binding residues [nucleotide binding] 502558006637 dimerization interface [polypeptide binding]; other site 502558006638 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006639 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 502558006640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558006641 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 502558006642 Family description; Region: UvrD_C_2; cl15862 502558006643 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 502558006644 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 502558006645 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 502558006646 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 502558006647 NeuB family; Region: NeuB; cl00496 502558006648 Chorismate mutase type II; Region: CM_2; cl00693 502558006649 Bacitracin resistance protein BacA; Region: BacA; cl00858 502558006650 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 502558006651 DNA binding residues [nucleotide binding] 502558006652 dimerization interface [polypeptide binding]; other site 502558006653 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 502558006654 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 502558006655 4Fe-4S binding domain; Region: Fer4; cl02805 502558006656 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 502558006657 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558006658 molybdopterin cofactor binding site; other site 502558006659 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558006660 molybdopterin cofactor binding site; other site 502558006661 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 502558006662 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 502558006663 FAD binding domain; Region: FAD_binding_4; pfam01565 502558006664 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 502558006665 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 502558006666 Cysteine-rich domain; Region: CCG; pfam02754 502558006667 Cysteine-rich domain; Region: CCG; pfam02754 502558006668 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 502558006669 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 502558006670 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 502558006671 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 502558006672 putative [4Fe-4S] binding site [ion binding]; other site 502558006673 putative molybdopterin cofactor binding site [chemical binding]; other site 502558006674 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558006675 molybdopterin cofactor binding site; other site 502558006676 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 502558006677 GMP synthase; Reviewed; Region: guaA; PRK00074 502558006678 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 502558006679 AMP/PPi binding site [chemical binding]; other site 502558006680 candidate oxyanion hole; other site 502558006681 catalytic triad [active] 502558006682 potential glutamine specificity residues [chemical binding]; other site 502558006683 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 502558006684 ATP Binding subdomain [chemical binding]; other site 502558006685 Ligand Binding sites [chemical binding]; other site 502558006686 Dimerization subdomain; other site 502558006687 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 502558006688 active site 502558006689 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 502558006690 GIY-YIG motif/motif A; other site 502558006691 putative active site [active] 502558006692 putative metal binding site [ion binding]; other site 502558006693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558006694 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 502558006695 Uncharacterized conserved protein [Function unknown]; Region: COG3410 502558006696 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 502558006697 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 502558006698 putative NAD(P) binding site [chemical binding]; other site 502558006699 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 502558006700 YcfA-like protein; Region: YcfA; cl00752 502558006701 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 502558006702 YjcQ protein; Region: YjcQ; pfam09639 502558006703 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 502558006704 HipA-like C-terminal domain; Region: HipA_C; pfam07804 502558006705 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 502558006706 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 502558006707 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 502558006708 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cl09913 502558006709 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 502558006710 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 502558006711 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 502558006712 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 502558006713 DNA topoisomerase I; Validated; Region: PRK07220 502558006714 TfoX N-terminal domain; Region: TfoX_N; cl01167 502558006715 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 502558006716 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 502558006717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 502558006718 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 502558006719 catalytic site [active] 502558006720 metal binding site [ion binding]; metal-binding site 502558006721 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 502558006722 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 502558006723 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558006724 Family description; Region: UvrD_C_2; cl15862 502558006725 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 502558006726 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 502558006727 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 502558006728 Predicted membrane protein [Function unknown]; Region: COG2860 502558006729 UPF0126 domain; Region: UPF0126; pfam03458 502558006730 UPF0126 domain; Region: UPF0126; pfam03458 502558006731 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 502558006732 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 502558006733 Phosphate transporter family; Region: PHO4; cl00396 502558006734 Phosphate transporter family; Region: PHO4; cl00396 502558006735 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 502558006736 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 502558006737 putative substrate translocation pore; other site 502558006738 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 502558006739 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 502558006740 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 502558006741 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 502558006742 synthetase active site [active] 502558006743 NTP binding site [chemical binding]; other site 502558006744 metal binding site [ion binding]; metal-binding site 502558006745 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 502558006746 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 502558006747 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 502558006748 DHH family; Region: DHH; pfam01368 502558006749 DHHA1 domain; Region: DHHA1; pfam02272 502558006750 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 502558006751 ATP binding site [chemical binding]; other site 502558006752 putative Mg++ binding site [ion binding]; other site 502558006753 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 502558006754 nucleotide binding region [chemical binding]; other site 502558006755 ATP-binding site [chemical binding]; other site 502558006756 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 502558006757 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 502558006758 putative oxidoreductase; Provisional; Region: PRK12831 502558006759 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 502558006760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006761 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 502558006762 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 502558006763 FAD binding pocket [chemical binding]; other site 502558006764 FAD binding motif [chemical binding]; other site 502558006765 phosphate binding motif [ion binding]; other site 502558006766 beta-alpha-beta structure motif; other site 502558006767 NAD binding pocket [chemical binding]; other site 502558006768 Iron coordination center [ion binding]; other site 502558006769 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 502558006770 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 502558006771 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 502558006772 Fe-S cluster binding site [ion binding]; other site 502558006773 active site 502558006774 alanine racemase; Reviewed; Region: alr; PRK00053 502558006775 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 502558006776 active site 502558006777 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 502558006778 dimer interface [polypeptide binding]; other site 502558006779 substrate binding site [chemical binding]; other site 502558006780 catalytic residues [active] 502558006781 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 502558006782 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 502558006783 DNA binding residues [nucleotide binding] 502558006784 dimerization interface [polypeptide binding]; other site 502558006785 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 502558006786 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558006787 molybdopterin cofactor binding site; other site 502558006788 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558006789 molybdopterin cofactor binding site; other site 502558006790 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 502558006791 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 502558006792 4Fe-4S binding domain; Region: Fer4; cl02805 502558006793 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 502558006794 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 502558006795 MPT binding site; other site 502558006796 trimer interface [polypeptide binding]; other site 502558006797 carotene isomerase; Region: carot_isom; TIGR02730 502558006798 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 502558006799 enolase; Provisional; Region: eno; PRK00077 502558006800 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 502558006801 dimer interface [polypeptide binding]; other site 502558006802 metal binding site [ion binding]; metal-binding site 502558006803 substrate binding pocket [chemical binding]; other site 502558006804 Cobalt transport protein; Region: CbiQ; cl00463 502558006805 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 502558006806 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 502558006807 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 502558006808 alphaNTD - beta interaction site [polypeptide binding]; other site 502558006809 alphaNTD homodimer interface [polypeptide binding]; other site 502558006810 alphaNTD - beta' interaction site [polypeptide binding]; other site 502558006811 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 502558006812 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 502558006813 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 502558006814 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 502558006815 RNA binding surface [nucleotide binding]; other site 502558006816 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 502558006817 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 502558006818 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 502558006819 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 502558006820 rRNA binding site [nucleotide binding]; other site 502558006821 predicted 30S ribosome binding site; other site 502558006822 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 502558006823 Ligand Binding Site [chemical binding]; other site 502558006824 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 502558006825 Major Facilitator Superfamily; Region: MFS_1; pfam07690 502558006826 putative substrate translocation pore; other site 502558006827 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 502558006828 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 502558006829 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 502558006830 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 502558006831 non-specific DNA binding site [nucleotide binding]; other site 502558006832 salt bridge; other site 502558006833 sequence-specific DNA binding site [nucleotide binding]; other site 502558006834 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 502558006835 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 502558006836 DNA binding residues [nucleotide binding] 502558006837 dimerization interface [polypeptide binding]; other site 502558006838 hypothetical protein; Validated; Region: PRK07121 502558006839 Predicted oxidoreductase [General function prediction only]; Region: COG3573 502558006840 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 502558006841 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 502558006842 ring oligomerisation interface [polypeptide binding]; other site 502558006843 ATP/Mg binding site [chemical binding]; other site 502558006844 stacking interactions; other site 502558006845 hinge regions; other site 502558006846 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 502558006847 oligomerisation interface [polypeptide binding]; other site 502558006848 mobile loop; other site 502558006849 roof hairpin; other site 502558006850 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 502558006851 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 502558006852 active site 502558006853 phosphorylation site [posttranslational modification] 502558006854 intermolecular recognition site; other site 502558006855 dimerization interface [polypeptide binding]; other site 502558006856 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 502558006857 DNA binding residues [nucleotide binding] 502558006858 dimerization interface [polypeptide binding]; other site 502558006859 Histidine kinase; Region: HisKA_3; pfam07730 502558006860 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 502558006861 ATP binding site [chemical binding]; other site 502558006862 Mg2+ binding site [ion binding]; other site 502558006863 G-X-G motif; other site 502558006864 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 502558006865 DNA binding residues [nucleotide binding] 502558006866 dimerization interface [polypeptide binding]; other site 502558006867 hypothetical protein; Validated; Region: PRK07121 502558006868 hypothetical protein; Validated; Region: PRK07121 502558006869 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 502558006870 NAD synthase; Region: NAD_synthase; pfam02540 502558006871 homodimer interface [polypeptide binding]; other site 502558006872 NAD binding pocket [chemical binding]; other site 502558006873 ATP binding pocket [chemical binding]; other site 502558006874 Mg binding site [ion binding]; other site 502558006875 active-site loop [active] 502558006876 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558006877 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 502558006878 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006879 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 502558006880 DNA binding residues [nucleotide binding] 502558006881 dimerization interface [polypeptide binding]; other site 502558006882 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 502558006883 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 502558006884 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 502558006885 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 502558006886 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 502558006887 active site 502558006888 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 502558006889 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 502558006890 S-adenosylmethionine binding site [chemical binding]; other site 502558006891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006892 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 502558006893 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 502558006894 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 502558006895 shikimate binding site; other site 502558006896 NAD(P) binding site [chemical binding]; other site 502558006897 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 502558006898 HicB family; Region: HicB; pfam05534 502558006899 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 502558006900 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 502558006901 UGMP family protein; Validated; Region: PRK09604 502558006902 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 502558006903 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 502558006904 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 502558006905 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 502558006906 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 502558006907 active site 502558006908 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 502558006909 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 502558006910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558006911 NAD(P) binding pocket [chemical binding]; other site 502558006912 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 502558006913 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 502558006914 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 502558006915 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 502558006916 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 502558006917 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 502558006918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558006919 Helix-turn-helix domains; Region: HTH; cl00088 502558006920 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; cd05466 502558006921 dimerization interface [polypeptide binding]; other site 502558006922 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006923 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 502558006924 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; cd01292 502558006925 active site 502558006926 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 502558006927 Domain of unknown function DUF21; Region: DUF21; pfam01595 502558006928 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 502558006929 Transporter associated domain; Region: CorC_HlyC; cl08393 502558006930 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 502558006931 DNA binding residues [nucleotide binding] 502558006932 dimerization interface [polypeptide binding]; other site 502558006933 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006934 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 502558006935 xanthine permease; Region: pbuX; TIGR03173 502558006936 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 502558006937 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 502558006938 active site 502558006939 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558006940 metal binding site [ion binding]; metal-binding site 502558006941 active site 502558006942 I-site; other site 502558006943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558006944 metal binding site [ion binding]; metal-binding site 502558006945 active site 502558006946 I-site; other site 502558006947 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558006948 metal binding site [ion binding]; metal-binding site 502558006949 active site 502558006950 I-site; other site 502558006951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558006952 metal binding site [ion binding]; metal-binding site 502558006953 active site 502558006954 I-site; other site 502558006955 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 502558006956 S-adenosylmethionine binding site [chemical binding]; other site 502558006957 Omega Transcriptional Repressor; Region: Omega_Repress; pfam07764 502558006958 Bacterial epsilon antitoxin; Region: Epsilon_antitox; pfam08998 502558006959 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558006960 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 502558006961 S-adenosylmethionine binding site [chemical binding]; other site 502558006962 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 502558006963 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 502558006964 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 502558006965 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 502558006966 Spore germination protein; Region: Spore_permease; cl15802 502558006967 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 502558006968 AMP-binding enzyme; Region: AMP-binding; cl15778 502558006969 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 502558006970 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 502558006971 metal binding site [ion binding]; metal-binding site 502558006972 substrate binding pocket [chemical binding]; other site 502558006973 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 502558006974 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 502558006975 substrate binding site [chemical binding]; other site 502558006976 oxyanion hole (OAH) forming residues; other site 502558006977 trimer interface [polypeptide binding]; other site 502558006978 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 502558006979 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 502558006980 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 502558006981 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 502558006982 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 502558006983 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 502558006984 dimer interface [polypeptide binding]; other site 502558006985 tetramer interface [polypeptide binding]; other site 502558006986 PYR/PP interface [polypeptide binding]; other site 502558006987 TPP binding site [chemical binding]; other site 502558006988 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 502558006989 TPP-binding site; other site 502558006990 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 502558006991 chorismate binding enzyme; Region: Chorismate_bind; cl10555 502558006992 TIGR04076 family protein; Region: TIGR04076 502558006993 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 502558006994 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 502558006995 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 502558006996 DNA binding residues [nucleotide binding] 502558006997 dimerization interface [polypeptide binding]; other site 502558006998 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558006999 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 502558007000 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 502558007001 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 502558007002 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 502558007003 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 502558007004 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 502558007005 DNA binding residues [nucleotide binding] 502558007006 dimerization interface [polypeptide binding]; other site 502558007007 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 502558007008 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 502558007009 ATP binding site [chemical binding]; other site 502558007010 Mg2+ binding site [ion binding]; other site 502558007011 G-X-G motif; other site 502558007012 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558007013 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 502558007014 active site 502558007015 phosphorylation site [posttranslational modification] 502558007016 intermolecular recognition site; other site 502558007017 dimerization interface [polypeptide binding]; other site 502558007018 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 502558007019 DNA binding site [nucleotide binding] 502558007020 hypothetical protein; Validated; Region: PRK07121 502558007021 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 502558007022 homodecamer interface [polypeptide binding]; other site 502558007023 GTP cyclohydrolase I; Provisional; Region: PLN03044 502558007024 active site 502558007025 putative catalytic site residues [active] 502558007026 zinc binding site [ion binding]; other site 502558007027 GTP-CH-I/GFRP interaction surface; other site 502558007028 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 502558007029 DNA binding residues [nucleotide binding] 502558007030 dimerization interface [polypeptide binding]; other site 502558007031 hypothetical protein; Validated; Region: PRK07121 502558007032 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 502558007033 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 502558007034 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 502558007035 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 502558007036 active site 502558007037 putative catalytic site [active] 502558007038 DNA binding site [nucleotide binding] 502558007039 putative phosphate binding site [ion binding]; other site 502558007040 metal binding site A [ion binding]; metal-binding site 502558007041 AP binding site [nucleotide binding]; other site 502558007042 metal binding site B [ion binding]; metal-binding site 502558007043 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 502558007044 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 502558007045 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 502558007046 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 502558007047 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 502558007048 dimer interface [polypeptide binding]; other site 502558007049 phosphorylation site [posttranslational modification] 502558007050 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 502558007051 ATP binding site [chemical binding]; other site 502558007052 Mg2+ binding site [ion binding]; other site 502558007053 G-X-G motif; other site 502558007054 Response regulator receiver domain; Region: Response_reg; pfam00072 502558007055 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 502558007056 active site 502558007057 phosphorylation site [posttranslational modification] 502558007058 intermolecular recognition site; other site 502558007059 dimerization interface [polypeptide binding]; other site 502558007060 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 502558007061 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 502558007062 active site 502558007063 phosphorylation site [posttranslational modification] 502558007064 intermolecular recognition site; other site 502558007065 dimerization interface [polypeptide binding]; other site 502558007066 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 502558007067 Zn2+ binding site [ion binding]; other site 502558007068 Mg2+ binding site [ion binding]; other site 502558007069 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 502558007070 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 502558007071 4Fe-4S binding domain; Region: Fer4_5; pfam12801 502558007072 4Fe-4S binding domain; Region: Fer4_5; pfam12801 502558007073 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 502558007074 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 502558007075 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 502558007076 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 502558007077 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558007078 4Fe-4S binding domain; Region: Fer4; cl02805 502558007079 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558007080 molybdopterin cofactor binding site; other site 502558007081 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558007082 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 502558007083 putative molybdopterin cofactor binding site; other site 502558007084 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 502558007085 Helix-turn-helix domains; Region: HTH; cl00088 502558007086 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 502558007087 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 502558007088 shikimate kinase; Reviewed; Region: aroK; PRK00131 502558007089 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 502558007090 ADP binding site [chemical binding]; other site 502558007091 magnesium binding site [ion binding]; other site 502558007092 putative shikimate binding site; other site 502558007093 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 502558007094 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558007095 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 502558007096 Ligand binding site [chemical binding]; other site 502558007097 Electron transfer flavoprotein domain; Region: ETF; pfam01012 502558007098 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 502558007099 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 502558007100 Ligand Binding Site [chemical binding]; other site 502558007101 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 502558007102 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 502558007103 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 502558007104 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558007105 active site 502558007106 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 502558007107 AMP-binding enzyme; Region: AMP-binding; cl15778 502558007108 AMP-binding enzyme; Region: AMP-binding; cl15778 502558007109 Sodium:solute symporter family; Region: SSF; cl00456 502558007110 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 502558007111 CoA-transferase family III; Region: CoA_transf_3; pfam02515 502558007112 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 502558007113 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 502558007114 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 502558007115 active site 502558007116 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 502558007117 Helix-turn-helix domains; Region: HTH; cl00088 502558007118 EamA-like transporter family; Region: EamA; cl01037 502558007119 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 502558007120 EamA-like transporter family; Region: EamA; cl01037 502558007121 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 502558007122 LemA family; Region: LemA; cl00742 502558007123 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 502558007124 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 502558007125 nucleoside/Zn binding site; other site 502558007126 dimer interface [polypeptide binding]; other site 502558007127 catalytic motif [active] 502558007128 hypothetical protein; Validated; Region: PRK07121 502558007129 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 502558007130 DNA binding residues [nucleotide binding] 502558007131 dimerization interface [polypeptide binding]; other site 502558007132 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 502558007133 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 502558007134 putative substrate translocation pore; other site 502558007135 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 502558007136 4Fe-4S binding domain; Region: Fer4; cl02805 502558007137 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 502558007138 molybdopterin cofactor binding site; other site 502558007139 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 502558007140 molybdopterin cofactor binding site; other site 502558007141 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 502558007142 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 502558007143 Helix-turn-helix domains; Region: HTH; cl00088 502558007144 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 502558007145 dimer interface [polypeptide binding]; other site 502558007146 Citrate synthase; Region: Citrate_synt; pfam00285 502558007147 active site 502558007148 citrylCoA binding site [chemical binding]; other site 502558007149 oxalacetate/citrate binding site [chemical binding]; other site 502558007150 coenzyme A binding site [chemical binding]; other site 502558007151 catalytic triad [active] 502558007152 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 502558007153 dimer interface [polypeptide binding]; other site 502558007154 conserved gate region; other site 502558007155 putative PBP binding loops; other site 502558007156 ABC-ATPase subunit interface; other site 502558007157 NMT1-like family; Region: NMT1_2; cl15260 502558007158 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 502558007159 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 502558007160 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007161 Walker A/P-loop; other site 502558007162 ATP binding site [chemical binding]; other site 502558007163 Q-loop/lid; other site 502558007164 ABC transporter signature motif; other site 502558007165 Walker B; other site 502558007166 D-loop; other site 502558007167 H-loop/switch region; other site 502558007168 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 502558007169 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 502558007170 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 502558007171 DNA binding residues [nucleotide binding] 502558007172 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 502558007173 hypothetical protein; Validated; Region: PRK07121 502558007174 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 502558007175 sequence-specific DNA binding site [nucleotide binding]; other site 502558007176 salt bridge; other site 502558007177 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 502558007178 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 502558007179 dimer interface [polypeptide binding]; other site 502558007180 phosphorylation site [posttranslational modification] 502558007181 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 502558007182 ATP binding site [chemical binding]; other site 502558007183 Mg2+ binding site [ion binding]; other site 502558007184 G-X-G motif; other site 502558007185 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 502558007186 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 502558007187 active site 502558007188 phosphorylation site [posttranslational modification] 502558007189 intermolecular recognition site; other site 502558007190 dimerization interface [polypeptide binding]; other site 502558007191 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 502558007192 DNA binding site [nucleotide binding] 502558007193 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 502558007194 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 502558007195 Walker A/P-loop; other site 502558007196 ATP binding site [chemical binding]; other site 502558007197 Q-loop/lid; other site 502558007198 ABC transporter signature motif; other site 502558007199 Walker B; other site 502558007200 D-loop; other site 502558007201 H-loop/switch region; other site 502558007202 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 502558007203 dimer interface [polypeptide binding]; other site 502558007204 conserved gate region; other site 502558007205 putative PBP binding loops; other site 502558007206 ABC-ATPase subunit interface; other site 502558007207 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 502558007208 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 502558007209 dimer interface [polypeptide binding]; other site 502558007210 conserved gate region; other site 502558007211 putative PBP binding loops; other site 502558007212 ABC-ATPase subunit interface; other site 502558007213 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 502558007214 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 502558007215 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 502558007216 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 502558007217 putative Ca2+ binding sites [ion binding]; other site 502558007218 putative ligand binding motif; other site 502558007219 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 502558007220 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 502558007221 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 502558007222 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 502558007223 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007224 Walker A motif; other site 502558007225 ATP binding site [chemical binding]; other site 502558007226 Walker B motif; other site 502558007227 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 502558007228 Mechanosensitive ion channel; Region: MS_channel; pfam00924 502558007229 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 502558007230 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 502558007231 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 502558007232 ATP cone domain; Region: ATP-cone; pfam03477 502558007233 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 502558007234 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 502558007235 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 502558007236 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 502558007237 Carbon starvation protein CstA; Region: CstA; pfam02554 502558007238 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 502558007239 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 502558007240 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 502558007241 catalytic residue [active] 502558007242 TM2 domain; Region: TM2; cl00984 502558007243 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 502558007244 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 502558007245 YtxH-like protein; Region: YtxH; cl02079 502558007246 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 502558007247 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 502558007248 ATP-grasp domain; Region: ATP-grasp_4; cl03087 502558007249 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 502558007250 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 502558007251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558007252 homodimer interface [polypeptide binding]; other site 502558007253 catalytic residue [active] 502558007254 cyanophycin synthetase; Provisional; Region: PRK14016 502558007255 seryl-tRNA synthetase; Provisional; Region: PRK05431 502558007256 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 502558007257 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 502558007258 dimer interface [polypeptide binding]; other site 502558007259 active site 502558007260 motif 1; other site 502558007261 motif 2; other site 502558007262 motif 3; other site 502558007263 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 502558007264 dimer interface [polypeptide binding]; other site 502558007265 phosphorylation site [posttranslational modification] 502558007266 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 502558007267 ATP binding site [chemical binding]; other site 502558007268 Mg2+ binding site [ion binding]; other site 502558007269 G-X-G motif; other site 502558007270 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 502558007271 Response regulator receiver domain; Region: Response_reg; pfam00072 502558007272 active site 502558007273 phosphorylation site [posttranslational modification] 502558007274 intermolecular recognition site; other site 502558007275 dimerization interface [polypeptide binding]; other site 502558007276 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 502558007277 dimer interface [polypeptide binding]; other site 502558007278 pyridoxal binding site [chemical binding]; other site 502558007279 ATP binding site [chemical binding]; other site 502558007280 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 502558007281 DNA binding residues [nucleotide binding] 502558007282 dimerization interface [polypeptide binding]; other site 502558007283 hypothetical protein; Validated; Region: PRK07121 502558007284 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 502558007285 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 502558007286 active site 502558007287 ATP binding site [chemical binding]; other site 502558007288 substrate binding site [chemical binding]; other site 502558007289 activation loop (A-loop); other site 502558007290 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 502558007291 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 502558007292 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558007293 metal binding site [ion binding]; metal-binding site 502558007294 active site 502558007295 I-site; other site 502558007296 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558007297 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558007298 metal binding site [ion binding]; metal-binding site 502558007299 active site 502558007300 I-site; other site 502558007301 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 502558007302 metal binding site [ion binding]; metal-binding site 502558007303 active site 502558007304 I-site; other site 502558007305 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 502558007306 CAAX protease self-immunity; Region: Abi; cl00558 502558007307 TraX protein; Region: TraX; cl05434 502558007308 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 502558007309 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 502558007310 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 502558007311 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 502558007312 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 502558007313 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 502558007314 catalytic triad [active] 502558007315 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 502558007316 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 502558007317 transmembrane helices; other site 502558007318 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 502558007319 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 502558007320 DNA binding residues [nucleotide binding] 502558007321 dimerization interface [polypeptide binding]; other site 502558007322 Fic/DOC family; Region: Fic; cl00960 502558007323 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 502558007324 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 502558007325 active site 502558007326 DNA binding site [nucleotide binding] 502558007327 Int/Topo IB signature motif; other site 502558007328 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 502558007329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007330 Walker A motif; other site 502558007331 ATP binding site [chemical binding]; other site 502558007332 Walker B motif; other site 502558007333 AAA-like domain; Region: AAA_10; pfam12846 502558007334 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007335 Walker A motif; other site 502558007336 ATP binding site [chemical binding]; other site 502558007337 Walker B motif; other site 502558007338 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 502558007339 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 502558007340 non-specific DNA binding site [nucleotide binding]; other site 502558007341 salt bridge; other site 502558007342 sequence-specific DNA binding site [nucleotide binding]; other site 502558007343 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 502558007344 non-specific DNA binding site [nucleotide binding]; other site 502558007345 salt bridge; other site 502558007346 sequence-specific DNA binding site [nucleotide binding]; other site 502558007347 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 502558007348 Ligand Binding Site [chemical binding]; other site 502558007349 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 502558007350 dinuclear metal binding motif [ion binding]; other site 502558007351 Uncharacterized protein, linocin/CFP29 homolog [Function unknown]; Region: COG1659 502558007352 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 502558007353 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 502558007354 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 502558007355 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 502558007356 active site 502558007357 substrate binding site [chemical binding]; other site 502558007358 ATP binding site [chemical binding]; other site 502558007359 hypothetical protein; Validated; Region: PRK07121 502558007360 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 502558007361 DNA binding residues [nucleotide binding] 502558007362 dimerization interface [polypeptide binding]; other site 502558007363 EamA-like transporter family; Region: EamA; cl01037 502558007364 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 502558007365 EamA-like transporter family; Region: EamA; cl01037 502558007366 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 502558007367 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 502558007368 phosphopeptide binding site; other site 502558007369 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 502558007370 phosphopeptide binding site; other site 502558007371 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 502558007372 Protein phosphatase 2C; Region: PP2C; pfam00481 502558007373 active site 502558007374 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 502558007375 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 502558007376 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 502558007377 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 502558007378 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 502558007379 active site 502558007380 ATP binding site [chemical binding]; other site 502558007381 substrate binding site [chemical binding]; other site 502558007382 activation loop (A-loop); other site 502558007383 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 502558007384 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 502558007385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 502558007386 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 502558007387 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 502558007388 Histidine kinase; Region: His_kinase; pfam06580 502558007389 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 502558007390 ATP binding site [chemical binding]; other site 502558007391 Mg2+ binding site [ion binding]; other site 502558007392 G-X-G motif; other site 502558007393 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 502558007394 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 502558007395 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 502558007396 QueT transporter; Region: QueT; cl01932 502558007397 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 502558007398 Predicted GTPases [General function prediction only]; Region: COG1162 502558007399 RNA binding site [nucleotide binding]; other site 502558007400 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 502558007401 GTPase/Zn-binding domain interface [polypeptide binding]; other site 502558007402 GTP/Mg2+ binding site [chemical binding]; other site 502558007403 G4 box; other site 502558007404 G5 box; other site 502558007405 G1 box; other site 502558007406 Switch I region; other site 502558007407 G2 box; other site 502558007408 G3 box; other site 502558007409 Switch II region; other site 502558007410 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 502558007411 Cation transport protein; Region: TrkH; cl10514 502558007412 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 502558007413 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 502558007414 FMN binding site [chemical binding]; other site 502558007415 substrate binding site [chemical binding]; other site 502558007416 putative catalytic residue [active] 502558007417 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 502558007418 Clp amino terminal domain; Region: Clp_N; pfam02861 502558007419 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 502558007420 Walker A motif; other site 502558007421 ATP binding site [chemical binding]; other site 502558007422 Walker B motif; other site 502558007423 arginine finger; other site 502558007424 Protein of unknown function (DUF1664); Region: DUF1664; pfam07889 502558007425 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 502558007426 Walker A motif; other site 502558007427 ATP binding site [chemical binding]; other site 502558007428 Walker B motif; other site 502558007429 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 502558007430 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 502558007431 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 502558007432 DNA binding residues [nucleotide binding] 502558007433 chaperone protein DnaJ; Provisional; Region: PRK14294 502558007434 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 502558007435 HSP70 interaction site [polypeptide binding]; other site 502558007436 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 502558007437 substrate binding site [polypeptide binding]; other site 502558007438 dimer interface [polypeptide binding]; other site 502558007439 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 502558007440 dimer interface [polypeptide binding]; other site 502558007441 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 502558007442 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 502558007443 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 502558007444 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 502558007445 dimerization interface [polypeptide binding]; other site 502558007446 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 502558007447 ATP binding site [chemical binding]; other site 502558007448 nickel responsive regulator; Provisional; Region: PRK04460 502558007449 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 502558007450 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 502558007451 hypothetical protein; Validated; Region: PRK07121 502558007452 Transcriptional regulator [Transcription]; Region: LysR; COG0583 502558007453 Helix-turn-helix domains; Region: HTH; cl00088 502558007454 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; cd05466 502558007455 dimerization interface [polypeptide binding]; other site 502558007456 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 502558007457 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 502558007458 active site 502558007459 substrate binding site [chemical binding]; other site 502558007460 metal binding site [ion binding]; metal-binding site 502558007461 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 502558007462 DNA binding residues [nucleotide binding] 502558007463 dimerization interface [polypeptide binding]; other site 502558007464 FAD binding domain; Region: FAD_binding_3; pfam01494 502558007465 hypothetical protein; Validated; Region: PRK07121 502558007466 Predicted oxidoreductase [General function prediction only]; Region: COG3573 502558007467 UDP-glucose 4-epimerase; Region: PLN02240 502558007468 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 502558007469 NAD binding site [chemical binding]; other site 502558007470 homodimer interface [polypeptide binding]; other site 502558007471 active site 502558007472 substrate binding site [chemical binding]; other site 502558007473 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 502558007474 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 502558007475 non-specific DNA binding site [nucleotide binding]; other site 502558007476 salt bridge; other site 502558007477 sequence-specific DNA binding site [nucleotide binding]; other site 502558007478 VanZ like family; Region: VanZ; cl01971 502558007479 phosphoglycolate phosphatase; Provisional; Region: PRK13222 502558007480 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 502558007481 motif II; other site 502558007482 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 502558007483 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 502558007484 active site 502558007485 DNA binding site [nucleotide binding] 502558007486 Int/Topo IB signature motif; other site 502558007487 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 502558007488 PemK-like protein; Region: PemK; cl00995 502558007489 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 502558007490 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 502558007491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558007492 oligomerization interface [polypeptide binding]; other site 502558007493 active site 502558007494 NAD+ binding site [chemical binding]; other site 502558007495 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 502558007496 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 502558007497 dimer interface [polypeptide binding]; other site 502558007498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 502558007499 catalytic residue [active] 502558007500 S-adenosylmethionine synthetase; Validated; Region: PRK05250 502558007501 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 502558007502 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 502558007503 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 502558007504 Helix-turn-helix domains; Region: HTH; cl00088 502558007505 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 502558007506 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 502558007507 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558007508 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007509 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 502558007510 Walker A/P-loop; other site 502558007511 ATP binding site [chemical binding]; other site 502558007512 Q-loop/lid; other site 502558007513 ABC transporter signature motif; other site 502558007514 Walker B; other site 502558007515 D-loop; other site 502558007516 H-loop/switch region; other site 502558007517 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 502558007518 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 502558007519 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007520 Walker A/P-loop; other site 502558007521 ATP binding site [chemical binding]; other site 502558007522 Q-loop/lid; other site 502558007523 ABC transporter signature motif; other site 502558007524 Walker B; other site 502558007525 D-loop; other site 502558007526 H-loop/switch region; other site 502558007527 tetracycline repressor protein TetR; Provisional; Region: PRK13756 502558007528 AMP-binding enzyme; Region: AMP-binding; cl15778 502558007529 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 502558007530 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 502558007531 AMP-binding enzyme; Region: AMP-binding; cl15778 502558007532 Phosphopantetheine attachment site; Region: PP-binding; cl09936 502558007533 Condensation domain; Region: Condensation; pfam00668 502558007534 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 502558007535 Nonribosomal peptide synthase; Region: NRPS; pfam08415 502558007536 AMP-binding enzyme; Region: AMP-binding; cl15778 502558007537 Methyltransferase domain; Region: Methyltransf_31; pfam13847 502558007538 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 502558007539 S-adenosylmethionine binding site [chemical binding]; other site 502558007540 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 502558007541 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 502558007542 Phosphopantetheine attachment site; Region: PP-binding; cl09936 502558007543 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 502558007544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558007545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 502558007546 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 502558007547 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 502558007548 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 502558007549 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 502558007550 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 502558007551 Walker A/P-loop; other site 502558007552 ATP binding site [chemical binding]; other site 502558007553 Q-loop/lid; other site 502558007554 ABC transporter signature motif; other site 502558007555 Walker B; other site 502558007556 D-loop; other site 502558007557 H-loop/switch region; other site 502558007558 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 502558007559 Walker A/P-loop; other site 502558007560 ATP binding site [chemical binding]; other site 502558007561 Q-loop/lid; other site 502558007562 ABC transporter signature motif; other site 502558007563 Walker B; other site 502558007564 D-loop; other site 502558007565 H-loop/switch region; other site 502558007566 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 502558007567 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; cl00427 502558007568 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 502558007569 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 502558007570 dimer interface [polypeptide binding]; other site 502558007571 conserved gate region; other site 502558007572 putative PBP binding loops; other site 502558007573 ABC-ATPase subunit interface; other site 502558007574 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 502558007575 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 502558007576 NlpC/P60 family; Region: NLPC_P60; cl11438 502558007577 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 502558007578 AAA-like domain; Region: AAA_10; pfam12846 502558007579 Domain of unknown function DUF87; Region: DUF87; pfam01935 502558007580 PrgI family protein; Region: PrgI; pfam12666 502558007581 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 502558007582 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007583 Walker A motif; other site 502558007584 ATP binding site [chemical binding]; other site 502558007585 Walker B motif; other site 502558007586 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 502558007587 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 502558007588 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 502558007589 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 502558007590 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 502558007591 Abi-like protein; Region: Abi_2; cl01988 502558007592 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 502558007593 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 502558007594 cofactor binding site; other site 502558007595 DNA binding site [nucleotide binding] 502558007596 substrate interaction site [chemical binding]; other site 502558007597 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 502558007598 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 502558007599 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 502558007600 cofactor binding site; other site 502558007601 DNA binding site [nucleotide binding] 502558007602 substrate interaction site [chemical binding]; other site 502558007603 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 502558007604 S-adenosylmethionine binding site [chemical binding]; other site 502558007605 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 502558007606 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007607 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 502558007608 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007609 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007610 NlpC/P60 family; Region: NLPC_P60; cl11438 502558007611 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 502558007612 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 502558007613 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 502558007614 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 502558007615 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 502558007616 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 502558007617 active site 502558007618 catalytic site [active] 502558007619 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 502558007620 ParB-like nuclease domain; Region: ParBc; cl02129 502558007621 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 502558007622 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 502558007623 P-loop; other site 502558007624 Magnesium ion binding site [ion binding]; other site 502558007625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007626 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 502558007627 Magnesium ion binding site [ion binding]; other site 502558007628 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 502558007629 non-specific DNA binding site [nucleotide binding]; other site 502558007630 salt bridge; other site 502558007631 sequence-specific DNA binding site [nucleotide binding]; other site 502558007632 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 502558007633 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 502558007634 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 502558007635 Macro domain, Unknown family 1. 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 polymerases)...; Region: Macro_1; cd02906 502558007636 putative ADP-ribose binding site [chemical binding]; other site 502558007637 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 502558007638 DNA binding residues [nucleotide binding] 502558007639 drug binding residues [chemical binding]; other site 502558007640 dimer interface [polypeptide binding]; other site 502558007641 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 502558007642 ABC-2 type transporter; Region: ABC2_membrane; cl11417 502558007643 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 502558007644 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 502558007645 Walker A/P-loop; other site 502558007646 ATP binding site [chemical binding]; other site 502558007647 Q-loop/lid; other site 502558007648 ABC transporter signature motif; other site 502558007649 Walker B; other site 502558007650 D-loop; other site 502558007651 H-loop/switch region; other site 502558007652 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 502558007653 DNA binding residues [nucleotide binding] 502558007654 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 502558007655 DNA binding residues [nucleotide binding] 502558007656 ABC-2 type transporter; Region: ABC2_membrane; cl11417 502558007657 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 502558007658 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 502558007659 Walker A/P-loop; other site 502558007660 ATP binding site [chemical binding]; other site 502558007661 Q-loop/lid; other site 502558007662 ABC transporter signature motif; other site 502558007663 Walker B; other site 502558007664 D-loop; other site 502558007665 H-loop/switch region; other site 502558007666 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 502558007667 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 502558007668 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 502558007669 DNA binding residues [nucleotide binding] 502558007670 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 502558007671 metal binding site [ion binding]; metal-binding site 502558007672 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 502558007673 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 502558007674 active site 502558007675 catalytic site [active] 502558007676 substrate binding site [chemical binding]; other site 502558007677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 502558007678 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 502558007679 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 502558007680 ATP-grasp domain; Region: ATP-grasp_4; cl03087 502558007681 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 502558007682 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 502558007683 FeS/SAM binding site; other site 502558007684 ParB-like partition proteins; Region: parB_part; TIGR00180 502558007685 ParB-like nuclease domain; Region: ParBc; cl02129 502558007686 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 502558007687 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 502558007688 P-loop; other site 502558007689 Magnesium ion binding site [ion binding]; other site 502558007690 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 502558007691 Magnesium ion binding site [ion binding]; other site 502558007692 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 502558007693 putative active site [active] 502558007694 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 502558007695 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 502558007696 G-X-X-G motif; other site 502558007697 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 502558007698 RxxxH motif; other site 502558007699 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 502558007700 Ribonuclease P; Region: Ribonuclease_P; cl00457 502558007701 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 502558007702 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 502558007703 ATP binding site [chemical binding]; other site 502558007704 Mg2+ binding site [ion binding]; other site 502558007705 G-X-G motif; other site 502558007706 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 502558007707 dimerization interface [polypeptide binding]; other site 502558007708 putative DNA binding site [nucleotide binding]; other site 502558007709 putative Zn2+ binding site [ion binding]; other site