-- dump date 20120504_161900 -- class Genbank::misc_feature -- table misc_feature_note -- id note 471855000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 471855000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 471855000003 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 471855000004 Walker A motif; other site 471855000005 ATP binding site [chemical binding]; other site 471855000006 Walker B motif; other site 471855000007 arginine finger; other site 471855000008 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 471855000009 DnaA box-binding interface [nucleotide binding]; other site 471855000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 471855000011 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 471855000012 putative DNA binding surface [nucleotide binding]; other site 471855000013 dimer interface [polypeptide binding]; other site 471855000014 beta-clamp/clamp loader binding surface; other site 471855000015 beta-clamp/translesion DNA polymerase binding surface; other site 471855000016 recombination protein F; Reviewed; Region: recF; PRK00064 471855000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000018 Walker A/P-loop; other site 471855000019 ATP binding site [chemical binding]; other site 471855000020 Q-loop/lid; other site 471855000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000022 ABC transporter signature motif; other site 471855000023 Walker B; other site 471855000024 D-loop; other site 471855000025 H-loop/switch region; other site 471855000026 Protein of unknown function (DUF721); Region: DUF721; cl02324 471855000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 471855000028 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 471855000029 ATP binding site [chemical binding]; other site 471855000030 Mg2+ binding site [ion binding]; other site 471855000031 G-X-G motif; other site 471855000032 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 471855000033 anchoring element; other site 471855000034 dimer interface [polypeptide binding]; other site 471855000035 ATP binding site [chemical binding]; other site 471855000036 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 471855000037 active site 471855000038 putative metal-binding site [ion binding]; other site 471855000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 471855000040 DNA gyrase subunit A; Validated; Region: PRK05560 471855000041 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 471855000042 CAP-like domain; other site 471855000043 active site 471855000044 primary dimer interface [polypeptide binding]; other site 471855000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 471855000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 471855000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 471855000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 471855000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 471855000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 471855000051 Transposase, Mutator family; Region: Transposase_mut; pfam00872 471855000052 MULE transposase domain; Region: MULE; pfam10551 471855000053 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 471855000054 metal ion-dependent adhesion site (MIDAS); other site 471855000055 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 471855000056 putative Ca2+ binding sites [ion binding]; other site 471855000057 domain interaction interfaces; other site 471855000058 putative ligand binding motif; other site 471855000059 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 471855000060 T surface-antigen of pili; Region: FctA; pfam12892 471855000061 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 471855000062 T surface-antigen of pili; Region: FctA; pfam12892 471855000063 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 471855000064 T surface-antigen of pili; Region: FctA; pfam12892 471855000065 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 471855000066 T surface-antigen of pili; Region: FctA; pfam12892 471855000067 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 471855000068 T surface-antigen of pili; Region: FctA; pfam12892 471855000069 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 471855000070 T surface-antigen of pili; Region: FctA; pfam12892 471855000071 T surface-antigen of pili; Region: FctA; pfam12892 471855000072 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 471855000073 Protein of unknown function (DUF554); Region: DUF554; cl00784 471855000074 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 471855000075 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 471855000076 nucleoside/Zn binding site; other site 471855000077 dimer interface [polypeptide binding]; other site 471855000078 catalytic motif [active] 471855000079 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 471855000080 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 471855000081 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 471855000082 motif II; other site 471855000083 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 471855000084 active site 471855000085 trimer interface [polypeptide binding]; other site 471855000086 allosteric site; other site 471855000087 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 471855000088 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 471855000089 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 471855000090 GatB domain; Region: GatB_Yqey; cl11497 471855000091 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]; Region: COG2108 471855000092 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 471855000093 FeS/SAM binding site; other site 471855000094 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 471855000095 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 471855000096 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 471855000097 Bacterial PH domain; Region: DUF304; cl01348 471855000098 Predicted membrane protein [Function unknown]; Region: COG3428 471855000099 Bacterial PH domain; Region: DUF304; cl01348 471855000100 Haemolysin-III related; Region: HlyIII; cl03831 471855000101 PspC domain; Region: PspC; cl00864 471855000102 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 471855000103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000104 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 471855000105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000106 adenylosuccinate lyase; Provisional; Region: PRK07492 471855000107 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 471855000108 tetramer interface [polypeptide binding]; other site 471855000109 active site 471855000110 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 471855000111 NlpC/P60 family; Region: NLPC_P60; cl11438 471855000112 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855000113 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000114 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000115 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000116 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 471855000117 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 471855000118 active site 471855000119 phosphorylation site [posttranslational modification] 471855000120 intermolecular recognition site; other site 471855000121 dimerization interface [polypeptide binding]; other site 471855000122 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 471855000123 DNA binding site [nucleotide binding] 471855000124 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 471855000125 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 471855000126 dimerization interface [polypeptide binding]; other site 471855000127 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 471855000128 dimer interface [polypeptide binding]; other site 471855000129 phosphorylation site [posttranslational modification] 471855000130 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 471855000131 ATP binding site [chemical binding]; other site 471855000132 Mg2+ binding site [ion binding]; other site 471855000133 G-X-G motif; other site 471855000134 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 471855000135 active site 471855000136 ATP binding site [chemical binding]; other site 471855000137 substrate binding site [chemical binding]; other site 471855000138 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 471855000139 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 471855000140 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 471855000141 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 471855000142 Histidine kinase; Region: His_kinase; pfam06580 471855000143 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 471855000144 ATP binding site [chemical binding]; other site 471855000145 Mg2+ binding site [ion binding]; other site 471855000146 G-X-G motif; other site 471855000147 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 471855000148 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 471855000149 active site 471855000150 phosphorylation site [posttranslational modification] 471855000151 intermolecular recognition site; other site 471855000152 dimerization interface [polypeptide binding]; other site 471855000153 LytTr DNA-binding domain; Region: LytTR; cl04498 471855000154 ribonuclease E; Reviewed; Region: rne; PRK10811 471855000155 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 471855000156 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 471855000157 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 471855000158 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 471855000159 Catalytic site [active] 471855000160 T surface-antigen of pili; Region: FctA; pfam12892 471855000161 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 471855000162 active site 471855000163 catalytic site [active] 471855000164 Cytochrome c552; Region: Cytochrom_C552; pfam02335 471855000165 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 471855000166 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 471855000167 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 471855000168 dimerization interface [polypeptide binding]; other site 471855000169 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 471855000170 DNA binding site [nucleotide binding] 471855000171 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 471855000172 active site 471855000173 dimer interface [polypeptide binding]; other site 471855000174 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 471855000175 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 471855000176 dimerization interface [polypeptide binding]; other site 471855000177 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 471855000178 ATP binding site [chemical binding]; other site 471855000179 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 471855000180 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 471855000181 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 471855000182 catalytic residue [active] 471855000183 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 471855000184 THUMP domain; Region: THUMP; cl12076 471855000185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000187 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 471855000188 Hydrogenase formation hypA family; Region: HypD; cl12072 471855000189 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 471855000190 HupF/HypC family; Region: HupF_HypC; cl00394 471855000191 Acylphosphatase; Region: Acylphosphatase; cl00551 471855000192 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 471855000193 HypF finger; Region: zf-HYPF; pfam07503 471855000194 HypF finger; Region: zf-HYPF; pfam07503 471855000195 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 471855000196 nickel responsive regulator; Provisional; Region: PRK04460 471855000197 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 471855000198 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 471855000199 Ferredoxin [Energy production and conversion]; Region: COG1146 471855000200 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 471855000201 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 471855000202 putative active site [active] 471855000203 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 471855000204 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 471855000205 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 471855000206 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 471855000207 Helix-turn-helix domains; Region: HTH; cl00088 471855000208 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855000209 Flavin Reductases; Region: FlaRed; cl00801 471855000210 Flavin Reductases; Region: FlaRed; cl00801 471855000211 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 471855000212 Radical SAM superfamily; Region: Radical_SAM; pfam04055 471855000213 FeS/SAM binding site; other site 471855000214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000215 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 471855000216 NAD(P) binding site [chemical binding]; other site 471855000217 active site 471855000218 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855000219 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855000220 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855000221 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855000222 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855000223 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855000224 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855000225 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855000226 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855000227 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855000228 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000229 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000230 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000231 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000232 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855000233 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855000234 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000235 Walker A/P-loop; other site 471855000236 ATP binding site [chemical binding]; other site 471855000237 Q-loop/lid; other site 471855000238 ABC transporter signature motif; other site 471855000239 Walker B; other site 471855000240 D-loop; other site 471855000241 H-loop/switch region; other site 471855000242 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 471855000243 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 471855000244 Walker A/P-loop; other site 471855000245 ATP binding site [chemical binding]; other site 471855000246 Q-loop/lid; other site 471855000247 ABC transporter signature motif; other site 471855000248 Walker B; other site 471855000249 D-loop; other site 471855000250 H-loop/switch region; other site 471855000251 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 471855000252 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000253 Walker A/P-loop; other site 471855000254 ATP binding site [chemical binding]; other site 471855000255 Q-loop/lid; other site 471855000256 ABC transporter signature motif; other site 471855000257 Walker B; other site 471855000258 D-loop; other site 471855000259 H-loop/switch region; other site 471855000260 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855000261 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855000262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000263 Walker A/P-loop; other site 471855000264 ATP binding site [chemical binding]; other site 471855000265 Q-loop/lid; other site 471855000266 ABC transporter signature motif; other site 471855000267 Walker B; other site 471855000268 D-loop; other site 471855000269 H-loop/switch region; other site 471855000270 Cobalt transport protein; Region: CbiQ; cl00463 471855000271 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 471855000272 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855000273 Helix-turn-helix domains; Region: HTH; cl00088 471855000274 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855000275 Protein of unknown function (DUF541); Region: SIMPL; cl01077 471855000276 Transposase; Region: DEDD_Tnp_IS110; pfam01548 471855000277 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 471855000278 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 471855000279 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 471855000280 catalytic core [active] 471855000281 CHAD domain; Region: CHAD; cl10506 471855000282 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 471855000283 active site 471855000284 metal binding site [ion binding]; metal-binding site 471855000285 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 471855000286 DNA binding residues [nucleotide binding] 471855000287 dimerization interface [polypeptide binding]; other site 471855000288 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 471855000289 ornithine carbamoyltransferase; Validated; Region: PRK02102 471855000290 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 471855000291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000292 carbamate kinase; Reviewed; Region: PRK12686 471855000293 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 471855000294 putative substrate binding site [chemical binding]; other site 471855000295 nucleotide binding site [chemical binding]; other site 471855000296 nucleotide binding site [chemical binding]; other site 471855000297 homodimer interface [polypeptide binding]; other site 471855000298 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 471855000299 catalytic triad [active] 471855000300 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855000301 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000302 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000303 CAAX protease self-immunity; Region: Abi; cl00558 471855000304 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 471855000305 non-specific DNA binding site [nucleotide binding]; other site 471855000306 salt bridge; other site 471855000307 sequence-specific DNA binding site [nucleotide binding]; other site 471855000308 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 471855000309 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 471855000310 DNA binding residues [nucleotide binding] 471855000311 putative dimer interface [polypeptide binding]; other site 471855000312 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 471855000313 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 471855000314 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855000315 Helix-turn-helix domains; Region: HTH; cl00088 471855000316 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 471855000317 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 471855000318 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 471855000319 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 471855000320 putative NAD(P) binding site [chemical binding]; other site 471855000321 catalytic Zn binding site [ion binding]; other site 471855000322 structural Zn binding site [ion binding]; other site 471855000323 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 471855000324 non-specific DNA binding site [nucleotide binding]; other site 471855000325 salt bridge; other site 471855000326 sequence-specific DNA binding site [nucleotide binding]; other site 471855000327 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 471855000328 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 471855000329 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 471855000330 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 471855000331 putative substrate binding site [chemical binding]; other site 471855000332 putative ATP binding site [chemical binding]; other site 471855000333 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 471855000334 heat shock protein 90; Provisional; Region: PRK05218 471855000335 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 471855000336 ATP binding site [chemical binding]; other site 471855000337 Mg2+ binding site [ion binding]; other site 471855000338 G-X-G motif; other site 471855000339 Phosphopantetheine attachment site; Region: PP-binding; cl09936 471855000340 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 471855000341 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 471855000342 FMN binding site [chemical binding]; other site 471855000343 substrate binding site [chemical binding]; other site 471855000344 putative catalytic residue [active] 471855000345 Acyl transferase domain; Region: Acyl_transf_1; cl08282 471855000346 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 471855000347 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 471855000348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000349 NAD(P) binding site [chemical binding]; other site 471855000350 active site 471855000351 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 471855000352 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 471855000353 dimer interface [polypeptide binding]; other site 471855000354 active site 471855000355 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 471855000356 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 471855000357 carboxyltransferase (CT) interaction site; other site 471855000358 biotinylation site [posttranslational modification]; other site 471855000359 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 471855000360 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 471855000361 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 471855000362 ATP-grasp domain; Region: ATP-grasp_4; cl03087 471855000363 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 471855000364 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 471855000365 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 471855000366 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 471855000367 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 471855000368 AMP-binding enzyme; Region: AMP-binding; cl15778 471855000369 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855000370 PAS domain; Region: PAS_9; pfam13426 471855000371 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 471855000372 putative active site [active] 471855000373 heme pocket [chemical binding]; other site 471855000374 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 471855000375 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 471855000376 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 471855000377 dimer interface [polypeptide binding]; other site 471855000378 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 471855000379 chaperone protein DnaJ; Provisional; Region: PRK14280 471855000380 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 471855000381 HSP70 interaction site [polypeptide binding]; other site 471855000382 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 471855000383 substrate binding site [polypeptide binding]; other site 471855000384 dimer interface [polypeptide binding]; other site 471855000385 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 471855000386 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 471855000387 DNA binding residues [nucleotide binding] 471855000388 putative dimer interface [polypeptide binding]; other site 471855000389 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 471855000390 Clp amino terminal domain; Region: Clp_N; pfam02861 471855000391 Clp amino terminal domain; Region: Clp_N; pfam02861 471855000392 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 471855000393 Walker A motif; other site 471855000394 ATP binding site [chemical binding]; other site 471855000395 Walker B motif; other site 471855000396 arginine finger; other site 471855000397 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 471855000398 Walker A motif; other site 471855000399 ATP binding site [chemical binding]; other site 471855000400 Walker B motif; other site 471855000401 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 471855000402 Transposase IS200 like; Region: Y1_Tnp; cl00848 471855000403 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 471855000404 DNA-binding interface [nucleotide binding]; DNA binding site 471855000405 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855000406 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 471855000407 Major Facilitator Superfamily; Region: MFS_1; pfam07690 471855000408 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 471855000409 Ligand Binding Site [chemical binding]; other site 471855000410 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 471855000411 putative homotetramer interface [polypeptide binding]; other site 471855000412 putative homodimer interface [polypeptide binding]; other site 471855000413 putative allosteric switch controlling residues; other site 471855000414 putative metal binding site [ion binding]; other site 471855000415 putative homodimer-homodimer interface [polypeptide binding]; other site 471855000416 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 471855000417 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 471855000418 metal-binding site [ion binding] 471855000419 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 471855000420 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855000421 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 471855000422 metal-binding site [ion binding] 471855000423 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 471855000424 metal-binding site [ion binding] 471855000425 TSCPD domain; Region: TSCPD; cl14834 471855000426 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 471855000427 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 471855000428 putative active site [active] 471855000429 putative metal binding site [ion binding]; other site 471855000430 Putative cyclase; Region: Cyclase; cl00814 471855000431 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 471855000432 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855000433 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 471855000434 active site 471855000435 motif I; other site 471855000436 motif II; other site 471855000437 Sodium:solute symporter family; Region: SSF; cl00456 471855000438 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 471855000439 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 471855000440 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 471855000441 Cation transport protein; Region: TrkH; cl10514 471855000442 Predicted GTPases [General function prediction only]; Region: COG1162 471855000443 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 471855000444 RNA binding site [nucleotide binding]; other site 471855000445 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 471855000446 GTPase/Zn-binding domain interface [polypeptide binding]; other site 471855000447 GTP/Mg2+ binding site [chemical binding]; other site 471855000448 G4 box; other site 471855000449 G5 box; other site 471855000450 G1 box; other site 471855000451 Switch I region; other site 471855000452 G2 box; other site 471855000453 G3 box; other site 471855000454 Switch II region; other site 471855000455 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 471855000456 active site 471855000457 catalytic triad [active] 471855000458 oxyanion hole [active] 471855000459 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 471855000460 metal ion-dependent adhesion site (MIDAS); other site 471855000461 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 471855000462 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 471855000463 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 471855000464 putative substrate translocation pore; other site 471855000465 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 471855000466 elongation factor G; Reviewed; Region: PRK12740 471855000467 G1 box; other site 471855000468 putative GEF interaction site [polypeptide binding]; other site 471855000469 GTP/Mg2+ binding site [chemical binding]; other site 471855000470 Switch I region; other site 471855000471 G2 box; other site 471855000472 G3 box; other site 471855000473 Switch II region; other site 471855000474 G4 box; other site 471855000475 G5 box; other site 471855000476 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 471855000477 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 471855000478 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 471855000479 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 471855000480 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 471855000481 S-adenosylmethionine binding site [chemical binding]; other site 471855000482 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 471855000483 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 471855000484 active site 471855000485 Helix-turn-helix domains; Region: HTH; cl00088 471855000486 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 471855000487 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 471855000488 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 471855000489 GTP binding site; other site 471855000490 Helix-turn-helix domains; Region: HTH; cl00088 471855000491 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 471855000492 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 471855000493 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 471855000494 dimer interface [polypeptide binding]; other site 471855000495 conserved gate region; other site 471855000496 putative PBP binding loops; other site 471855000497 ABC-ATPase subunit interface; other site 471855000498 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 471855000499 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000500 Walker A/P-loop; other site 471855000501 ATP binding site [chemical binding]; other site 471855000502 Q-loop/lid; other site 471855000503 ABC transporter signature motif; other site 471855000504 Walker B; other site 471855000505 D-loop; other site 471855000506 H-loop/switch region; other site 471855000507 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 471855000508 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 471855000509 FeS/SAM binding site; other site 471855000510 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 471855000511 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 471855000512 trimer interface [polypeptide binding]; other site 471855000513 dimer interface [polypeptide binding]; other site 471855000514 putative active site [active] 471855000515 Helix-turn-helix domains; Region: HTH; cl00088 471855000516 putative transposase OrfB; Reviewed; Region: PHA02517 471855000517 HTH-like domain; Region: HTH_21; pfam13276 471855000518 Integrase core domain; Region: rve; cl01316 471855000519 Integrase core domain; Region: rve_3; cl15866 471855000520 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 471855000521 MPT binding site; other site 471855000522 trimer interface [polypeptide binding]; other site 471855000523 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 471855000524 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 471855000525 dimer interface [polypeptide binding]; other site 471855000526 putative functional site; other site 471855000527 putative MPT binding site; other site 471855000528 Methyltransferase domain; Region: Methyltransf_31; pfam13847 471855000529 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 471855000530 S-adenosylmethionine binding site [chemical binding]; other site 471855000531 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 471855000532 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 471855000533 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 471855000534 active site 471855000535 HIGH motif; other site 471855000536 KMSK motif region; other site 471855000537 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 471855000538 tRNA binding surface [nucleotide binding]; other site 471855000539 anticodon binding site; other site 471855000540 polyphosphate kinase; Provisional; Region: PRK05443 471855000541 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 471855000542 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 471855000543 Catalytic C-terminal domain, first repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C1_unchar; cd09166 471855000544 putative domain interface [polypeptide binding]; other site 471855000545 putative active site [active] 471855000546 catalytic site [active] 471855000547 Catalytic C-terminal domain, second repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C2_unchar; cd09169 471855000548 putative domain interface [polypeptide binding]; other site 471855000549 putative active site [active] 471855000550 catalytic site [active] 471855000551 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 471855000552 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 471855000553 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 471855000554 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 471855000555 active site 471855000556 catalytic site [active] 471855000557 amidophosphoribosyltransferase; Region: purF; TIGR01134 471855000558 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 471855000559 active site 471855000560 tetramer interface [polypeptide binding]; other site 471855000561 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 471855000562 active site 471855000563 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 471855000564 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 471855000565 dimerization interface [polypeptide binding]; other site 471855000566 putative ATP binding site [chemical binding]; other site 471855000567 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 471855000568 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 471855000569 active site 471855000570 substrate binding site [chemical binding]; other site 471855000571 cosubstrate binding site; other site 471855000572 catalytic site [active] 471855000573 XdhC Rossmann domain; Region: XdhC_C; pfam13478 471855000574 HIRAN domain; Region: HIRAN; cl07418 471855000575 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 471855000576 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 471855000577 Walker A/P-loop; other site 471855000578 ATP binding site [chemical binding]; other site 471855000579 Q-loop/lid; other site 471855000580 ABC transporter signature motif; other site 471855000581 Walker B; other site 471855000582 D-loop; other site 471855000583 H-loop/switch region; other site 471855000584 FtsX-like permease family; Region: FtsX; cl15850 471855000585 FtsX-like permease family; Region: FtsX; cl15850 471855000586 MOSC domain; Region: MOSC; pfam03473 471855000587 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 471855000588 aspartate aminotransferase; Provisional; Region: PRK06836 471855000589 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 471855000590 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855000591 homodimer interface [polypeptide binding]; other site 471855000592 catalytic residue [active] 471855000593 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 471855000594 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 471855000595 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 471855000596 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 471855000597 Ferritin-like domain; Region: Ferritin; pfam00210 471855000598 ferroxidase diiron center [ion binding]; other site 471855000599 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 471855000600 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 471855000601 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 471855000602 Walker A/P-loop; other site 471855000603 ATP binding site [chemical binding]; other site 471855000604 Q-loop/lid; other site 471855000605 ABC transporter signature motif; other site 471855000606 Walker B; other site 471855000607 D-loop; other site 471855000608 H-loop/switch region; other site 471855000609 Cortexillin I, coiled coil; Region: Cortex-I_coil; pfam09304 471855000610 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 471855000611 FtsX-like permease family; Region: FtsX; cl15850 471855000612 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 471855000613 FtsX-like permease family; Region: FtsX; cl15850 471855000614 transcription termination factor Rho; Provisional; Region: PRK12678 471855000615 G5 domain; Region: G5; pfam07501 471855000616 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 471855000617 NodB motif; other site 471855000618 active site 471855000619 catalytic site [active] 471855000620 metal binding site [ion binding]; metal-binding site 471855000621 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 471855000622 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 471855000623 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 471855000624 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 471855000625 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 471855000626 PYR/PP interface [polypeptide binding]; other site 471855000627 dimer interface [polypeptide binding]; other site 471855000628 TPP binding site [chemical binding]; other site 471855000629 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 471855000630 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 471855000631 TPP-binding site [chemical binding]; other site 471855000632 dimer interface [polypeptide binding]; other site 471855000633 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 471855000634 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 471855000635 putative valine binding site [chemical binding]; other site 471855000636 dimer interface [polypeptide binding]; other site 471855000637 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 471855000638 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 471855000639 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 471855000640 TOBE domain; Region: TOBE_2; cl01440 471855000641 TOBE domain; Region: TOBE_2; cl01440 471855000642 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 471855000643 active site 471855000644 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 471855000645 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 471855000646 Walker A motif; other site 471855000647 ATP binding site [chemical binding]; other site 471855000648 Walker B motif; other site 471855000649 arginine finger; other site 471855000650 Peptidase family M41; Region: Peptidase_M41; pfam01434 471855000651 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 471855000652 dihydropteroate synthase; Region: DHPS; TIGR01496 471855000653 substrate binding pocket [chemical binding]; other site 471855000654 dimer interface [polypeptide binding]; other site 471855000655 inhibitor binding site; inhibition site 471855000656 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 471855000657 catalytic center binding site [active] 471855000658 ATP binding site [chemical binding]; other site 471855000659 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 471855000660 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 471855000661 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 471855000662 MatE; Region: MatE; cl10513 471855000663 MatE; Region: MatE; cl10513 471855000664 Polysulphide reductase, NrfD; Region: NrfD; cl01295 471855000665 Predicted transcriptional regulators [Transcription]; Region: COG1725 471855000666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 471855000667 DNA-binding site [nucleotide binding]; DNA binding site 471855000668 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 471855000669 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 471855000670 molybdopterin cofactor binding site; other site 471855000671 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 471855000672 molybdopterin cofactor binding site; other site 471855000673 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855000674 4Fe-4S binding domain; Region: Fer4; cl02805 471855000675 Polysulphide reductase, NrfD; Region: NrfD; cl01295 471855000676 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 471855000677 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 471855000678 Walker A/P-loop; other site 471855000679 ATP binding site [chemical binding]; other site 471855000680 Q-loop/lid; other site 471855000681 ABC transporter signature motif; other site 471855000682 Walker B; other site 471855000683 D-loop; other site 471855000684 H-loop/switch region; other site 471855000685 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 471855000686 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 471855000687 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855000688 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855000689 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 471855000690 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 471855000691 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 471855000692 dimer interface [polypeptide binding]; other site 471855000693 phosphorylation site [posttranslational modification] 471855000694 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 471855000695 ATP binding site [chemical binding]; other site 471855000696 Mg2+ binding site [ion binding]; other site 471855000697 G-X-G motif; other site 471855000698 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 471855000699 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 471855000700 active site 471855000701 phosphorylation site [posttranslational modification] 471855000702 intermolecular recognition site; other site 471855000703 dimerization interface [polypeptide binding]; other site 471855000704 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 471855000705 DNA binding site [nucleotide binding] 471855000706 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 471855000707 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 471855000708 active site 471855000709 metal binding site [ion binding]; metal-binding site 471855000710 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 471855000711 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 471855000712 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 471855000713 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 471855000714 Coenzyme A binding pocket [chemical binding]; other site 471855000715 UGMP family protein; Validated; Region: PRK09604 471855000716 Helix-turn-helix domains; Region: HTH; cl00088 471855000717 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 471855000718 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 471855000719 FeS/SAM binding site; other site 471855000720 Flavin Reductases; Region: FlaRed; cl00801 471855000721 DNA polymerase IV; Reviewed; Region: PRK03103 471855000722 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 471855000723 active site 471855000724 DNA binding site [nucleotide binding] 471855000725 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 471855000726 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 471855000727 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 471855000728 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 471855000729 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 471855000730 Walker A motif; other site 471855000731 ATP binding site [chemical binding]; other site 471855000732 Walker B motif; other site 471855000733 arginine finger; other site 471855000734 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 471855000735 recombination protein RecR; Reviewed; Region: recR; PRK00076 471855000736 RecR protein; Region: RecR; pfam02132 471855000737 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 471855000738 putative active site [active] 471855000739 putative metal-binding site [ion binding]; other site 471855000740 tetramer interface [polypeptide binding]; other site 471855000741 Amidinotransferase; Region: Amidinotransf; cl12043 471855000742 ornithine carbamoyltransferase; Validated; Region: PRK02102 471855000743 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 471855000744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000745 carbamate kinase; Reviewed; Region: PRK12686 471855000746 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 471855000747 putative substrate binding site [chemical binding]; other site 471855000748 nucleotide binding site [chemical binding]; other site 471855000749 nucleotide binding site [chemical binding]; other site 471855000750 homodimer interface [polypeptide binding]; other site 471855000751 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855000752 Polysulphide reductase, NrfD; Region: NrfD; cl01295 471855000753 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855000754 4Fe-4S binding domain; Region: Fer4; cl02805 471855000755 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 471855000756 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 471855000757 molybdopterin cofactor binding site; other site 471855000758 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 471855000759 molybdopterin cofactor binding site; other site 471855000760 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 471855000761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 471855000762 DNA-binding site [nucleotide binding]; DNA binding site 471855000763 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 471855000764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855000765 homodimer interface [polypeptide binding]; other site 471855000766 catalytic residue [active] 471855000767 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 471855000768 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 471855000769 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855000770 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000771 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 471855000772 Helix-turn-helix domains; Region: HTH; cl00088 471855000773 Helix-turn-helix domains; Region: HTH; cl00088 471855000774 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 471855000775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000776 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 471855000777 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855000778 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000779 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855000780 Transposase, Mutator family; Region: Transposase_mut; pfam00872 471855000781 MULE transposase domain; Region: MULE; pfam10551 471855000782 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 471855000783 active site 471855000784 substrate-binding site [chemical binding]; other site 471855000785 metal-binding site [ion binding] 471855000786 ATP binding site [chemical binding]; other site 471855000787 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 471855000788 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 471855000789 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 471855000790 AAA domain; Region: AAA_22; pfam13401 471855000791 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 471855000792 Walker A motif; other site 471855000793 ATP binding site [chemical binding]; other site 471855000794 Walker B motif; other site 471855000795 arginine finger; other site 471855000796 4Fe-4S binding domain; Region: Fer4; cl02805 471855000797 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 471855000798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000799 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 471855000800 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 471855000801 DNA binding residues [nucleotide binding] 471855000802 dimerization interface [polypeptide binding]; other site 471855000803 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 471855000804 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 471855000805 active site 471855000806 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 471855000807 Ligand binding site [chemical binding]; other site 471855000808 Electron transfer flavoprotein domain; Region: ETF; pfam01012 471855000809 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 471855000810 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 471855000811 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 471855000812 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 471855000813 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 471855000814 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 471855000815 Aminoglycoside-2''-adenylyltransferase; Region: Aminoglyc_resit; pfam10706 471855000816 Archaeal ATPase; Region: Arch_ATPase; pfam01637 471855000817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000818 Helix-turn-helix domains; Region: HTH; cl00088 471855000819 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 471855000820 non-specific DNA binding site [nucleotide binding]; other site 471855000821 salt bridge; other site 471855000822 sequence-specific DNA binding site [nucleotide binding]; other site 471855000823 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 471855000824 Transposase, Mutator family; Region: Transposase_mut; pfam00872 471855000825 MULE transposase domain; Region: MULE; pfam10551 471855000826 recombination endonuclease VII; Provisional; Region: 49; PHA02565 471855000827 Protein of unknown function DUF262; Region: DUF262; cl14890 471855000828 Protein of unknown function DUF262; Region: DUF262; cl14890 471855000829 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 471855000830 active site 471855000831 NTP binding site [chemical binding]; other site 471855000832 metal binding triad [ion binding]; metal-binding site 471855000833 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 471855000834 MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown; Region: MIT_C; cd02685 471855000835 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 471855000836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000837 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 471855000838 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 471855000839 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 471855000840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000842 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 471855000843 TIGR02687 family protein; Region: TIGR02687 471855000844 PglZ domain; Region: PglZ; pfam08665 471855000845 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 471855000846 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 471855000847 Protein of unknown function DUF262; Region: DUF262; cl14890 471855000848 Protein of unknown function DUF262; Region: DUF262; cl14890 471855000849 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 471855000850 S-adenosylmethionine binding site [chemical binding]; other site 471855000851 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 471855000852 Predicted transcriptional regulators [Transcription]; Region: COG1725 471855000853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 471855000854 DNA-binding site [nucleotide binding]; DNA binding site 471855000855 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 471855000856 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 471855000857 Moco binding site; other site 471855000858 metal coordination site [ion binding]; other site 471855000859 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 471855000860 Moco binding site; other site 471855000861 metal coordination site [ion binding]; other site 471855000862 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855000863 Polysulphide reductase, NrfD; Region: NrfD; cl01295 471855000864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855000865 Helix-turn-helix domains; Region: HTH; cl00088 471855000866 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 471855000867 dimerization interface [polypeptide binding]; other site 471855000868 FAD binding domain; Region: FAD_binding_2; pfam00890 471855000869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855000870 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 471855000871 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 471855000872 Helix-turn-helix domains; Region: HTH; cl00088 471855000873 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855000874 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 471855000875 active site 471855000876 FMN binding site [chemical binding]; other site 471855000877 substrate binding site [chemical binding]; other site 471855000878 putative catalytic residue [active] 471855000879 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 471855000880 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 471855000881 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 471855000882 classical (c) SDRs; Region: SDR_c; cd05233 471855000883 NAD(P) binding site [chemical binding]; other site 471855000884 active site 471855000885 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 471855000886 Short C-terminal domain; Region: SHOCT; cl01373 471855000887 Integrase core domain; Region: rve; cl01316 471855000888 Integrase core domain; Region: rve_3; cl15866 471855000889 Helix-turn-helix domains; Region: HTH; cl00088 471855000890 putative transposase OrfB; Reviewed; Region: PHA02517 471855000891 HTH-like domain; Region: HTH_21; pfam13276 471855000892 Integrase core domain; Region: rve; cl01316 471855000893 Integrase core domain; Region: rve_3; cl15866 471855000894 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855000895 active site 471855000896 ATP binding site [chemical binding]; other site 471855000897 substrate binding site [chemical binding]; other site 471855000898 activation loop (A-loop); other site 471855000899 hypothetical protein; Provisional; Region: PRK12474 471855000900 Tetratricopeptide repeat; Region: TPR_12; pfam13424 471855000901 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 471855000902 Protein phosphatase 2C; Region: PP2C; pfam00481 471855000903 active site 471855000904 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 471855000905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000906 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855000907 active site 471855000908 ATP binding site [chemical binding]; other site 471855000909 substrate binding site [chemical binding]; other site 471855000910 activation loop (A-loop); other site 471855000911 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855000912 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855000913 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 471855000914 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 471855000915 Walker A motif; other site 471855000916 ATP binding site [chemical binding]; other site 471855000917 Walker B motif; other site 471855000918 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 471855000919 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 471855000920 DNA-binding interface [nucleotide binding]; DNA binding site 471855000921 Integrase core domain; Region: rve; cl01316 471855000922 transposase/IS protein; Provisional; Region: PRK09183 471855000923 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 471855000924 Walker A motif; other site 471855000925 ATP binding site [chemical binding]; other site 471855000926 Walker B motif; other site 471855000927 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 471855000928 Integrase core domain; Region: rve; cl01316 471855000929 Transposase; Region: DEDD_Tnp_IS110; pfam01548 471855000930 Transposase, Mutator family; Region: Transposase_mut; pfam00872 471855000931 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 471855000932 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855000933 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 471855000934 active site 471855000935 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 471855000936 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 471855000937 phosphopeptide binding site; other site 471855000938 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 471855000939 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 471855000940 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 471855000941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000942 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 471855000943 Walker A motif; other site 471855000944 Walker A motif; other site 471855000945 ATP binding site [chemical binding]; other site 471855000946 Walker B motif; other site 471855000947 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 471855000948 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855000949 Cupin domain; Region: Cupin_2; cl09118 471855000950 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 471855000951 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 471855000952 substrate binding pocket [chemical binding]; other site 471855000953 membrane-bound complex binding site; other site 471855000954 hinge residues; other site 471855000955 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 471855000956 dimer interface [polypeptide binding]; other site 471855000957 conserved gate region; other site 471855000958 putative PBP binding loops; other site 471855000959 ABC-ATPase subunit interface; other site 471855000960 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 471855000961 dimer interface [polypeptide binding]; other site 471855000962 conserved gate region; other site 471855000963 putative PBP binding loops; other site 471855000964 ABC-ATPase subunit interface; other site 471855000965 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 471855000966 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000967 Walker A/P-loop; other site 471855000968 ATP binding site [chemical binding]; other site 471855000969 Q-loop/lid; other site 471855000970 ABC transporter signature motif; other site 471855000971 Walker B; other site 471855000972 D-loop; other site 471855000973 H-loop/switch region; other site 471855000974 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 471855000975 Helix-turn-helix domains; Region: HTH; cl00088 471855000976 Helix-turn-helix domains; Region: HTH; cl00088 471855000977 Archaeal ATPase; Region: Arch_ATPase; pfam01637 471855000978 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855000979 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 471855000980 Restriction endonuclease; Region: Mrr_cat; cl00516 471855000981 RelB antitoxin; Region: RelB; cl01171 471855000982 glycerol-3-phosphate dehydrogenase; Region: PLN02464 471855000983 FAD binding domain; Region: FAD_binding_2; pfam00890 471855000984 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12835 471855000985 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 471855000986 DNA binding residues [nucleotide binding] 471855000987 dimerization interface [polypeptide binding]; other site 471855000988 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 471855000989 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 471855000990 Walker A/P-loop; other site 471855000991 ATP binding site [chemical binding]; other site 471855000992 Q-loop/lid; other site 471855000993 ABC transporter signature motif; other site 471855000994 Walker B; other site 471855000995 D-loop; other site 471855000996 H-loop/switch region; other site 471855000997 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 471855000998 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 471855000999 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 471855001000 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 471855001001 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 471855001002 active site 471855001003 metal binding site [ion binding]; metal-binding site 471855001004 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855001005 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 471855001006 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 471855001007 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 471855001008 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 471855001009 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855001010 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855001011 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 471855001012 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 471855001013 dinuclear metal binding motif [ion binding]; other site 471855001014 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 471855001015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855001016 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 471855001017 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 471855001018 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 471855001019 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 471855001020 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 471855001021 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 471855001022 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 471855001023 ATP binding site [chemical binding]; other site 471855001024 putative Mg++ binding site [ion binding]; other site 471855001025 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 471855001026 nucleotide binding region [chemical binding]; other site 471855001027 ATP-binding site [chemical binding]; other site 471855001028 C-terminal putative phospholipase D-like domain of uncharacterized prokaryotic HKD family nucleases fused to DEAD/DEAH box helicases; Region: PLDc_C_DEXD_like; cd09126 471855001029 PLD-like domain; Region: PLDc_2; pfam13091 471855001030 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 471855001031 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 471855001032 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 471855001033 FMN binding site [chemical binding]; other site 471855001034 substrate binding site [chemical binding]; other site 471855001035 putative catalytic residue [active] 471855001036 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 471855001037 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 471855001038 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 471855001039 substrate binding pocket [chemical binding]; other site 471855001040 membrane-bound complex binding site; other site 471855001041 hinge residues; other site 471855001042 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 471855001043 catalytic site [active] 471855001044 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 471855001045 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855001046 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 471855001047 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855001048 active site 471855001049 substrate binding site [chemical binding]; other site 471855001050 activation loop (A-loop); other site 471855001051 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 471855001052 metal ion-dependent adhesion site (MIDAS); other site 471855001053 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 471855001054 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 471855001055 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 471855001056 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 471855001057 metal ion-dependent adhesion site (MIDAS); other site 471855001058 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 471855001059 Sel1 repeat; Region: Sel1; cl02723 471855001060 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 471855001061 Sel1 repeat; Region: Sel1; cl02723 471855001062 Sel1 repeat; Region: Sel1; cl02723 471855001063 Sel1 repeat; Region: Sel1; cl02723 471855001064 Sel1 repeat; Region: Sel1; cl02723 471855001065 Sel1 repeat; Region: Sel1; cl02723 471855001066 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 471855001067 Sel1 repeat; Region: Sel1; cl02723 471855001068 Sel1 repeat; Region: Sel1; cl02723 471855001069 Sel1 repeat; Region: Sel1; cl02723 471855001070 Sel1 repeat; Region: Sel1; cl02723 471855001071 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 471855001072 Sel1 repeat; Region: Sel1; cl02723 471855001073 Sel1 repeat; Region: Sel1; cl02723 471855001074 Sel1 repeat; Region: Sel1; cl02723 471855001075 Sel1 repeat; Region: Sel1; cl02723 471855001076 Sel1 repeat; Region: Sel1; cl02723 471855001077 Sel1 repeat; Region: Sel1; cl02723 471855001078 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 471855001079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855001080 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855001081 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855001082 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 471855001083 AMP-binding enzyme; Region: AMP-binding; cl15778 471855001084 AMP-binding enzyme; Region: AMP-binding; cl15778 471855001085 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 471855001086 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 471855001087 substrate binding site [chemical binding]; other site 471855001088 oxyanion hole (OAH) forming residues; other site 471855001089 trimer interface [polypeptide binding]; other site 471855001090 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 471855001091 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 471855001092 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 471855001093 Radical SAM superfamily; Region: Radical_SAM; pfam04055 471855001094 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 471855001095 FeS/SAM binding site; other site 471855001096 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 471855001097 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 471855001098 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 471855001099 FMN binding site [chemical binding]; other site 471855001100 substrate binding site [chemical binding]; other site 471855001101 putative catalytic residue [active] 471855001102 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855001103 Helix-turn-helix domains; Region: HTH; cl00088 471855001104 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 471855001105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855001106 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 471855001107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855001108 Transposase; Region: DEDD_Tnp_IS110; pfam01548 471855001109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 471855001110 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 471855001111 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 471855001112 Uncharacterized conserved protein [Function unknown]; Region: COG4715 471855001113 SWIM zinc finger; Region: SWIM; cl15408 471855001114 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855001115 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 471855001116 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 471855001117 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855001118 Helix-turn-helix domains; Region: HTH; cl00088 471855001119 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 471855001120 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 471855001121 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 471855001122 molybdopterin cofactor binding site; other site 471855001123 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 471855001124 molybdopterin cofactor binding site; other site 471855001125 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 471855001126 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855001127 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 471855001128 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 471855001129 Sulphur transport; Region: Sulf_transp; cl01018 471855001130 putative inner membrane protein; Provisional; Region: PRK11099 471855001131 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 471855001132 CPxP motif; other site 471855001133 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 471855001134 active site residue [active] 471855001135 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 471855001136 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 471855001137 catalytic residues [active] 471855001138 autotransport protein MisL; Provisional; Region: PRK15313 471855001139 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 471855001140 putative active site [active] 471855001141 catalytic triad [active] 471855001142 putative dimer interface [polypeptide binding]; other site 471855001143 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 471855001144 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 471855001145 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 471855001146 Helix-turn-helix domains; Region: HTH; cl00088 471855001147 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 471855001148 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 471855001149 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 471855001150 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 471855001151 Helix-turn-helix domains; Region: HTH; cl00088 471855001152 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 471855001153 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 471855001154 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 471855001155 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 471855001156 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 471855001157 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 471855001158 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855001159 Sporulation related domain; Region: SPOR; cl10051 471855001160 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 471855001161 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 471855001162 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 471855001163 Sulfatase; Region: Sulfatase; cl10460 471855001164 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 471855001165 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 471855001166 putative dimer interface [polypeptide binding]; other site 471855001167 putative anticodon binding site; other site 471855001168 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 471855001169 homodimer interface [polypeptide binding]; other site 471855001170 motif 1; other site 471855001171 motif 2; other site 471855001172 active site 471855001173 motif 3; other site 471855001174 trigger factor; Region: tig; TIGR00115 471855001175 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 471855001176 uracil-xanthine permease; Region: ncs2; TIGR00801 471855001177 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 471855001178 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 471855001179 active site 471855001180 Protein of unknown function (DUF328); Region: DUF328; cl01143 471855001181 Sodium:solute symporter family; Region: SSF; cl00456 471855001182 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 471855001183 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 471855001184 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 471855001185 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 471855001186 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 471855001187 dimer interface [polypeptide binding]; other site 471855001188 motif 1; other site 471855001189 active site 471855001190 motif 2; other site 471855001191 motif 3; other site 471855001192 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 471855001193 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 471855001194 putative tRNA-binding site [nucleotide binding]; other site 471855001195 B3/4 domain; Region: B3_4; cl11458 471855001196 tRNA synthetase B5 domain; Region: B5; cl08394 471855001197 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 471855001198 dimer interface [polypeptide binding]; other site 471855001199 motif 1; other site 471855001200 motif 3; other site 471855001201 motif 2; other site 471855001202 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 471855001203 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 471855001204 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 471855001205 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855001206 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 471855001207 arginine repressor; Provisional; Region: argR; PRK00441 471855001208 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 471855001209 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 471855001210 ATP cone domain; Region: ATP-cone; pfam03477 471855001211 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 471855001212 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 471855001213 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 471855001214 FeS/SAM binding site; other site 471855001215 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 471855001216 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 471855001217 DNA binding residues [nucleotide binding] 471855001218 putative dimer interface [polypeptide binding]; other site 471855001219 Rrf2 family protein; Region: rrf2_super; TIGR00738 471855001220 Helix-turn-helix domains; Region: HTH; cl00088 471855001221 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 471855001222 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 471855001223 dimer interface [polypeptide binding]; other site 471855001224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855001225 catalytic residue [active] 471855001226 Peptidase C26; Region: Peptidase_C26; pfam07722 471855001227 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 471855001228 catalytic triad [active] 471855001229 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 471855001230 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 471855001231 Ligand Binding Site [chemical binding]; other site 471855001232 putative transposase OrfB; Reviewed; Region: PHA02517 471855001233 HTH-like domain; Region: HTH_21; pfam13276 471855001234 Integrase core domain; Region: rve; cl01316 471855001235 Integrase core domain; Region: rve_3; cl15866 471855001236 Helix-turn-helix domains; Region: HTH; cl00088 471855001237 Helix-turn-helix domains; Region: HTH; cl00088 471855001238 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 471855001239 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 471855001240 homodimer interface [polypeptide binding]; other site 471855001241 substrate-cofactor binding pocket; other site 471855001242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855001243 catalytic residue [active] 471855001244 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 471855001245 active site 471855001246 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 471855001247 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 471855001248 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 471855001249 Ligand Binding Site [chemical binding]; other site 471855001250 Protein of unknown function (DUF4013); Region: DUF4013; pfam13197 471855001251 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 471855001252 S-adenosylmethionine binding site [chemical binding]; other site 471855001253 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 471855001254 FMN binding site [chemical binding]; other site 471855001255 dimer interface [polypeptide binding]; other site 471855001256 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 471855001257 ATP-grasp domain; Region: ATP-grasp_4; cl03087 471855001258 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 471855001259 CoenzymeA binding site [chemical binding]; other site 471855001260 subunit interaction site [polypeptide binding]; other site 471855001261 PHB binding site; other site 471855001262 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 471855001263 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 471855001264 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 471855001265 domain interaction interfaces; other site 471855001266 putative Ca2+ binding sites [ion binding]; other site 471855001267 putative ligand binding motif; other site 471855001268 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 471855001269 CoenzymeA binding site [chemical binding]; other site 471855001270 subunit interaction site [polypeptide binding]; other site 471855001271 PHB binding site; other site 471855001272 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 471855001273 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 471855001274 active site 471855001275 metal binding site [ion binding]; metal-binding site 471855001276 Cation efflux family; Region: Cation_efflux; cl00316 471855001277 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 471855001278 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 471855001279 active site 471855001280 catalytic tetrad [active] 471855001281 4Fe-4S binding domain; Region: Fer4; cl02805 471855001282 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855001283 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855001284 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855001285 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 471855001286 Malic enzyme, N-terminal domain; Region: malic; pfam00390 471855001287 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 471855001288 putative NAD(P) binding site [chemical binding]; other site 471855001289 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]; Region: COG2108 471855001290 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 471855001291 FeS/SAM binding site; other site 471855001292 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855001293 Helix-turn-helix domains; Region: HTH; cl00088 471855001294 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 471855001295 dimerization interface [polypeptide binding]; other site 471855001296 tetrathionate reductase subunit B; Provisional; Region: PRK14993 471855001297 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 471855001298 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 471855001299 molybdopterin cofactor binding site; other site 471855001300 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 471855001301 molybdopterin cofactor binding site; other site 471855001302 Low molecular weight phosphatase family; Region: LMWPc; cd00115 471855001303 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 471855001304 active site 471855001305 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 471855001306 classical (c) SDRs; Region: SDR_c; cd05233 471855001307 NAD(P) binding site [chemical binding]; other site 471855001308 active site 471855001309 NlpE N-terminal domain; Region: NlpE; cl01138 471855001310 Membrane protein of unknown function; Region: DUF360; cl00850 471855001311 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 471855001312 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 471855001313 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 471855001314 non-specific DNA binding site [nucleotide binding]; other site 471855001315 salt bridge; other site 471855001316 sequence-specific DNA binding site [nucleotide binding]; other site 471855001317 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855001318 AAA domain; Region: AAA_28; pfam13521 471855001319 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 471855001320 putative active site; other site 471855001321 putative metal binding residues [ion binding]; other site 471855001322 signature motif; other site 471855001323 putative triphosphate binding site [ion binding]; other site 471855001324 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 471855001325 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 471855001326 4Fe-4S binding domain; Region: Fer4; cl02805 471855001327 EamA-like transporter family; Region: EamA; cl01037 471855001328 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 471855001329 EamA-like transporter family; Region: EamA; cl01037 471855001330 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 471855001331 adenylate kinase; Provisional; Region: PRK14526 471855001332 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 471855001333 non-specific DNA binding site [nucleotide binding]; other site 471855001334 salt bridge; other site 471855001335 sequence-specific DNA binding site [nucleotide binding]; other site 471855001336 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 471855001337 active site 471855001338 homodimer interface [polypeptide binding]; other site 471855001339 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 471855001340 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 471855001341 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855001342 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 471855001343 transaminase; Validated; Region: PRK07324 471855001344 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 471855001345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855001346 homodimer interface [polypeptide binding]; other site 471855001347 catalytic residue [active] 471855001348 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 471855001349 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 471855001350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855001351 homodimer interface [polypeptide binding]; other site 471855001352 catalytic residue [active] 471855001353 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 471855001354 Domain of unknown function (DUF296); Region: DUF296; cl00720 471855001355 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 471855001356 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 471855001357 active site 471855001358 NTP binding site [chemical binding]; other site 471855001359 metal binding triad [ion binding]; metal-binding site 471855001360 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 471855001361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 471855001362 Zn2+ binding site [ion binding]; other site 471855001363 Mg2+ binding site [ion binding]; other site 471855001364 CAAX protease self-immunity; Region: Abi; cl00558 471855001365 EamA-like transporter family; Region: EamA; cl01037 471855001366 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 471855001367 EamA-like transporter family; Region: EamA; cl01037 471855001368 Maf-like protein; Region: Maf; pfam02545 471855001369 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 471855001370 active site 471855001371 dimer interface [polypeptide binding]; other site 471855001372 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 471855001373 Ligand Binding Site [chemical binding]; other site 471855001374 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 471855001375 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855001376 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 471855001377 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 471855001378 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 471855001379 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 471855001380 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 471855001381 oligomerisation interface [polypeptide binding]; other site 471855001382 mobile loop; other site 471855001383 roof hairpin; other site 471855001384 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 471855001385 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 471855001386 ring oligomerisation interface [polypeptide binding]; other site 471855001387 ATP/Mg binding site [chemical binding]; other site 471855001388 stacking interactions; other site 471855001389 hinge regions; other site 471855001390 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 471855001391 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 471855001392 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 471855001393 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 471855001394 Sodium:solute symporter family; Region: SSF; cl00456 471855001395 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 471855001396 putative active site [active] 471855001397 putative metal binding site [ion binding]; other site 471855001398 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 471855001399 Cysteine-rich domain; Region: CCG; pfam02754 471855001400 Cysteine-rich domain; Region: CCG; pfam02754 471855001401 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 471855001402 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 471855001403 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 471855001404 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 471855001405 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 471855001406 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 471855001407 NAD(P) binding site [chemical binding]; other site 471855001408 catalytic residues [active] 471855001409 FIST N domain; Region: FIST; cl10701 471855001410 FIST C domain; Region: FIST_C; pfam10442 471855001411 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 471855001412 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 471855001413 DNA binding residues [nucleotide binding] 471855001414 dimerization interface [polypeptide binding]; other site 471855001415 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 471855001416 molybdopterin cofactor binding site; other site 471855001417 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 471855001418 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 471855001419 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 471855001420 molybdopterin cofactor binding site; other site 471855001421 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855001422 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855001423 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 471855001424 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855001425 Helix-turn-helix domains; Region: HTH; cl00088 471855001426 PA14 domain; Region: PA14; cl08459 471855001427 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 471855001428 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 471855001429 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 471855001430 Sortase C (SrtC) or subfamily-3 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_C_3; cd05827 471855001431 active site 471855001432 catalytic site [active] 471855001433 Sortase C (SrtC) or subfamily-3 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_C_3; cd05827 471855001434 active site 471855001435 catalytic site [active] 471855001436 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 471855001437 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 471855001438 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 471855001439 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 471855001440 active site 471855001441 phosphorylation site [posttranslational modification] 471855001442 intermolecular recognition site; other site 471855001443 dimerization interface [polypeptide binding]; other site 471855001444 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 471855001445 DNA binding site [nucleotide binding] 471855001446 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 471855001447 dimer interface [polypeptide binding]; other site 471855001448 phosphorylation site [posttranslational modification] 471855001449 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 471855001450 ATP binding site [chemical binding]; other site 471855001451 Mg2+ binding site [ion binding]; other site 471855001452 G-X-G motif; other site 471855001453 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 471855001454 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 471855001455 ATP binding site [chemical binding]; other site 471855001456 Mg2+ binding site [ion binding]; other site 471855001457 G-X-G motif; other site 471855001458 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 471855001459 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 471855001460 active site 471855001461 phosphorylation site [posttranslational modification] 471855001462 intermolecular recognition site; other site 471855001463 dimerization interface [polypeptide binding]; other site 471855001464 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 471855001465 DNA binding site [nucleotide binding] 471855001466 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 471855001467 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 471855001468 Walker A/P-loop; other site 471855001469 ATP binding site [chemical binding]; other site 471855001470 Q-loop/lid; other site 471855001471 ABC transporter signature motif; other site 471855001472 Walker B; other site 471855001473 D-loop; other site 471855001474 H-loop/switch region; other site 471855001475 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 471855001476 ABC-2 type transporter; Region: ABC2_membrane; cl11417 471855001477 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 471855001478 Nicotine adenine dinucleotide glycohydrolase (NADase); Region: NADase_NGA; pfam07461 471855001479 Protease prsW family; Region: PrsW-protease; cl15823 471855001480 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 471855001481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855001482 Family description; Region: UvrD_C_2; cl15862 471855001483 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 471855001484 putative transposase OrfB; Reviewed; Region: PHA02517 471855001485 HTH-like domain; Region: HTH_21; pfam13276 471855001486 Integrase core domain; Region: rve; cl01316 471855001487 Integrase core domain; Region: rve_3; cl15866 471855001488 Helix-turn-helix domains; Region: HTH; cl00088 471855001489 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 471855001490 putative FMN binding site [chemical binding]; other site 471855001491 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 471855001492 MatE; Region: MatE; cl10513 471855001493 MatE; Region: MatE; cl10513 471855001494 Uncharacterized conserved protein [Function unknown]; Region: COG1915 471855001495 Leucine rich repeat variant; Region: LRV; pfam01816 471855001496 Leucine rich repeat variant; Region: LRV; pfam01816 471855001497 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 471855001498 dimerization interface [polypeptide binding]; other site 471855001499 putative DNA binding site [nucleotide binding]; other site 471855001500 putative Zn2+ binding site [ion binding]; other site 471855001501 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 471855001502 metal-binding site [ion binding] 471855001503 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 471855001504 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 471855001505 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855001506 Helix-turn-helix domains; Region: HTH; cl00088 471855001507 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 471855001508 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 471855001509 ligand binding site [chemical binding]; other site 471855001510 Helix-turn-helix domains; Region: HTH; cl00088 471855001511 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 471855001512 4Fe-4S binding domain; Region: Fer4; cl02805 471855001513 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 471855001514 carbamate kinase; Reviewed; Region: PRK12686 471855001515 putative substrate binding site [chemical binding]; other site 471855001516 nucleotide binding site [chemical binding]; other site 471855001517 nucleotide binding site [chemical binding]; other site 471855001518 homodimer interface [polypeptide binding]; other site 471855001519 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 471855001520 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855001521 Helix-turn-helix domains; Region: HTH; cl00088 471855001522 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 471855001523 dimerization interface [polypeptide binding]; other site 471855001524 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 471855001525 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 471855001526 metal binding site [ion binding]; metal-binding site 471855001527 putative dimer interface [polypeptide binding]; other site 471855001528 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 471855001529 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 471855001530 Vps51/Vps67; Region: Vps51; cl15380 471855001531 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 471855001532 ABC-2 type transporter; Region: ABC2_membrane; cl11417 471855001533 Predicted membrane protein [Function unknown]; Region: COG1511 471855001534 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 471855001535 ABC-2 type transporter; Region: ABC2_membrane; cl11417 471855001536 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855001537 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 471855001538 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 471855001539 trimer interface [polypeptide binding]; other site 471855001540 putative metal binding site [ion binding]; other site 471855001541 Phosphate transporter family; Region: PHO4; cl00396 471855001542 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 471855001543 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 471855001544 DNA binding residues [nucleotide binding] 471855001545 dimerization interface [polypeptide binding]; other site 471855001546 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855001547 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 471855001548 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 471855001549 molybdopterin cofactor binding site; other site 471855001550 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 471855001551 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 471855001552 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 471855001553 putative molybdopterin cofactor binding site; other site 471855001554 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855001555 4Fe-4S binding domain; Region: Fer4; cl02805 471855001556 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855001557 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 471855001558 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 471855001559 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 471855001560 4Fe-4S binding domain; Region: Fer4; cl02805 471855001561 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 471855001562 4Fe-4S binding domain; Region: Fer4; cl02805 471855001563 ferredoxin; Validated; Region: PRK07118 471855001564 4Fe-4S binding domain; Region: Fer4; cl02805 471855001565 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 471855001566 4Fe-4S binding domain; Region: Fer4; cl02805 471855001567 thiosulfate reductase PhsA; Provisional; Region: PRK15488 471855001568 ACT domain-containing protein [General function prediction only]; Region: COG4747 471855001569 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 471855001570 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 471855001571 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 471855001572 AMP-binding enzyme; Region: AMP-binding; cl15778 471855001573 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 471855001574 non-specific DNA binding site [nucleotide binding]; other site 471855001575 salt bridge; other site 471855001576 sequence-specific DNA binding site [nucleotide binding]; other site 471855001577 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855001578 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855001579 Predicted dehydrogenase [General function prediction only]; Region: COG0579 471855001580 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 471855001581 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 471855001582 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 471855001583 OpgC protein; Region: OpgC_C; cl00792 471855001584 Acyltransferase family; Region: Acyl_transf_3; pfam01757 471855001585 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 471855001586 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 471855001587 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 471855001588 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 471855001589 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 471855001590 active site 471855001591 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 471855001592 active site 471855001593 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 471855001594 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 471855001595 active site 471855001596 catalytic tetrad [active] 471855001597 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 471855001598 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855001599 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855001600 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855001601 Helix-turn-helix domains; Region: HTH; cl00088 471855001602 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 471855001603 active site 471855001604 metal binding site [ion binding]; metal-binding site 471855001605 homotetramer interface [polypeptide binding]; other site 471855001606 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 471855001607 active site 471855001608 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 471855001609 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 471855001610 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 471855001611 ATP binding site [chemical binding]; other site 471855001612 putative Mg++ binding site [ion binding]; other site 471855001613 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 471855001614 nucleotide binding region [chemical binding]; other site 471855001615 ATP-binding site [chemical binding]; other site 471855001616 RQC domain; Region: RQC; cl09632 471855001617 HRDC domain; Region: HRDC; cl02578 471855001618 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 471855001619 Helix-turn-helix domains; Region: HTH; cl00088 471855001620 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 471855001621 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 471855001622 CoenzymeA binding site [chemical binding]; other site 471855001623 subunit interaction site [polypeptide binding]; other site 471855001624 PHB binding site; other site 471855001625 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 471855001626 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 471855001627 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 471855001628 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 471855001629 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 471855001630 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 471855001631 MFS/sugar transport protein; Region: MFS_2; pfam13347 471855001632 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 471855001633 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 471855001634 catalytic core [active] 471855001635 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 471855001636 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 471855001637 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 471855001638 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 471855001639 dimerization interface [polypeptide binding]; other site 471855001640 ATP binding site [chemical binding]; other site 471855001641 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 471855001642 dimerization interface [polypeptide binding]; other site 471855001643 ATP binding site [chemical binding]; other site 471855001644 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 471855001645 putative active site [active] 471855001646 catalytic triad [active] 471855001647 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 471855001648 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 471855001649 active site 471855001650 metal binding site [ion binding]; metal-binding site 471855001651 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 471855001652 S-adenosylmethionine binding site [chemical binding]; other site 471855001653 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 471855001654 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 471855001655 active site 471855001656 catalytic residue [active] 471855001657 dimer interface [polypeptide binding]; other site 471855001658 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 471855001659 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 471855001660 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 471855001661 shikimate binding site; other site 471855001662 NAD(P) binding site [chemical binding]; other site 471855001663 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 471855001664 active site 471855001665 catalytic residues [active] 471855001666 metal binding site [ion binding]; metal-binding site 471855001667 outer membrane N-deacetylase; Provisional; Region: hmsF; PRK14581 471855001668 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 471855001669 putative active site [active] 471855001670 putative metal binding site [ion binding]; other site 471855001671 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 471855001672 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 471855001673 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 471855001674 shikimate kinase; Reviewed; Region: aroK; PRK00131 471855001675 ADP binding site [chemical binding]; other site 471855001676 magnesium binding site [ion binding]; other site 471855001677 putative shikimate binding site; other site 471855001678 Double zinc ribbon; Region: DZR; pfam12773 471855001679 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855001680 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855001681 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; cl00062 471855001682 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855001683 active site 471855001684 ATP binding site [chemical binding]; other site 471855001685 substrate binding site [chemical binding]; other site 471855001686 activation loop (A-loop); other site 471855001687 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855001688 Double zinc ribbon; Region: DZR; pfam12773 471855001689 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855001690 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855001691 Double zinc ribbon; Region: DZR; pfam12773 471855001692 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855001693 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855001694 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 471855001695 Helix-turn-helix domains; Region: HTH; cl00088 471855001696 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 471855001697 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 471855001698 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855001699 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 471855001700 metal-binding site [ion binding] 471855001701 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 471855001702 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 471855001703 oligomer interface [polypeptide binding]; other site 471855001704 putative active site [active] 471855001705 metal binding site [ion binding]; metal-binding site 471855001706 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 471855001707 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 471855001708 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 471855001709 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 471855001710 active site 471855001711 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 471855001712 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 471855001713 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 471855001714 non-specific DNA binding site [nucleotide binding]; other site 471855001715 salt bridge; other site 471855001716 sequence-specific DNA binding site [nucleotide binding]; other site 471855001717 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 471855001718 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 471855001719 HIGH motif; other site 471855001720 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 471855001721 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 471855001722 active site 471855001723 KMSKS motif; other site 471855001724 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 471855001725 tRNA binding surface [nucleotide binding]; other site 471855001726 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 471855001727 putative active site [active] 471855001728 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 471855001729 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 471855001730 DNA binding residues [nucleotide binding] 471855001731 dimerization interface [polypeptide binding]; other site 471855001732 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 471855001733 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 471855001734 molybdopterin cofactor binding site; other site 471855001735 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 471855001736 molybdopterin cofactor binding site; other site 471855001737 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 471855001738 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 471855001739 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 471855001740 4Fe-4S binding domain; Region: Fer4; cl02805 471855001741 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855001742 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 471855001743 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 471855001744 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 471855001745 substrate binding pocket [chemical binding]; other site 471855001746 membrane-bound complex binding site; other site 471855001747 hinge residues; other site 471855001748 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 471855001749 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 471855001750 dimer interface [polypeptide binding]; other site 471855001751 conserved gate region; other site 471855001752 putative PBP binding loops; other site 471855001753 ABC-ATPase subunit interface; other site 471855001754 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 471855001755 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 471855001756 Walker A/P-loop; other site 471855001757 ATP binding site [chemical binding]; other site 471855001758 Q-loop/lid; other site 471855001759 ABC transporter signature motif; other site 471855001760 Walker B; other site 471855001761 D-loop; other site 471855001762 H-loop/switch region; other site 471855001763 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 471855001764 30S subunit binding site; other site 471855001765 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 471855001766 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 471855001767 active site 471855001768 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 471855001769 Protein of unknown function (DUF523); Region: DUF523; cl00733 471855001770 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 471855001771 putative DNA binding site [nucleotide binding]; other site 471855001772 putative Zn2+ binding site [ion binding]; other site 471855001773 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855001774 Helix-turn-helix domains; Region: HTH; cl00088 471855001775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855001776 FAD dependent oxidoreductase; Region: DAO; pfam01266 471855001777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855001778 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 471855001779 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 471855001780 Transcriptional regulator; Region: Transcrip_reg; cl00361 471855001781 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 471855001782 active site 471855001783 putative DNA-binding cleft [nucleotide binding]; other site 471855001784 dimer interface [polypeptide binding]; other site 471855001785 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 471855001786 RuvA N terminal domain; Region: RuvA_N; pfam01330 471855001787 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 471855001788 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 471855001789 Walker A motif; other site 471855001790 ATP binding site [chemical binding]; other site 471855001791 Walker B motif; other site 471855001792 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 471855001793 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 471855001794 DNA-binding site [nucleotide binding]; DNA binding site 471855001795 RNA-binding motif; other site 471855001796 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 471855001797 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 471855001798 catalytic motif [active] 471855001799 Zn binding site [ion binding]; other site 471855001800 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 471855001801 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 471855001802 Lumazine binding domain; Region: Lum_binding; pfam00677 471855001803 Lumazine binding domain; Region: Lum_binding; pfam00677 471855001804 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 471855001805 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 471855001806 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 471855001807 dimerization interface [polypeptide binding]; other site 471855001808 active site 471855001809 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 471855001810 homopentamer interface [polypeptide binding]; other site 471855001811 active site 471855001812 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 471855001813 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855001814 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 471855001815 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855001816 motif II; other site 471855001817 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 471855001818 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 471855001819 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 471855001820 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 471855001821 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 471855001822 alpha-NAC-related protein; Region: TIGR00264 471855001823 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 471855001824 Protein export membrane protein; Region: SecD_SecF; cl14618 471855001825 Protein export membrane protein; Region: SecD_SecF; cl14618 471855001826 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 471855001827 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 471855001828 Helix-turn-helix domains; Region: HTH; cl00088 471855001829 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 471855001830 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 471855001831 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 471855001832 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 471855001833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 471855001834 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 471855001835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 471855001836 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855001837 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855001838 G4 box; other site 471855001839 G5 box; other site 471855001840 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 471855001841 hypothetical protein; Validated; Region: PRK07121 471855001842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855001843 Helix-turn-helix domains; Region: HTH; cl00088 471855001844 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 471855001845 dimerization interface [polypeptide binding]; other site 471855001846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855001847 hypothetical protein; Validated; Region: PRK07121 471855001848 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 471855001849 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 471855001850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855001851 Helix-turn-helix domains; Region: HTH; cl00088 471855001852 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 471855001853 dimerization interface [polypeptide binding]; other site 471855001854 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 471855001855 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 471855001856 molybdopterin cofactor binding site; other site 471855001857 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 471855001858 molybdopterin cofactor binding site; other site 471855001859 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 471855001860 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855001861 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 471855001862 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855001863 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 471855001864 Predicted methyltransferases [General function prediction only]; Region: COG0313 471855001865 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 471855001866 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 471855001867 C-terminal domain interface [polypeptide binding]; other site 471855001868 GSH binding site (G-site) [chemical binding]; other site 471855001869 dimer interface [polypeptide binding]; other site 471855001870 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 471855001871 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 471855001872 dimer interface [polypeptide binding]; other site 471855001873 active site 471855001874 metal binding site [ion binding]; metal-binding site 471855001875 Protein of unknown function DUF45; Region: DUF45; cl00636 471855001876 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 471855001877 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 471855001878 active site 471855001879 HIGH motif; other site 471855001880 KMSKS motif; other site 471855001881 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 471855001882 tRNA binding surface [nucleotide binding]; other site 471855001883 anticodon binding site; other site 471855001884 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 471855001885 active site 471855001886 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855001887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855001888 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 471855001889 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 471855001890 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 471855001891 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 471855001892 Walker A/P-loop; other site 471855001893 ATP binding site [chemical binding]; other site 471855001894 Q-loop/lid; other site 471855001895 ABC transporter signature motif; other site 471855001896 Walker B; other site 471855001897 D-loop; other site 471855001898 H-loop/switch region; other site 471855001899 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 471855001900 Walker A/P-loop; other site 471855001901 ATP binding site [chemical binding]; other site 471855001902 Q-loop/lid; other site 471855001903 ABC transporter signature motif; other site 471855001904 Walker B; other site 471855001905 D-loop; other site 471855001906 H-loop/switch region; other site 471855001907 Cobalt transport protein; Region: CbiQ; cl00463 471855001908 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 471855001909 Carbon starvation protein CstA; Region: CstA; pfam02554 471855001910 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 471855001911 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 471855001912 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 471855001913 DNA-binding site [nucleotide binding]; DNA binding site 471855001914 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 471855001915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855001916 homodimer interface [polypeptide binding]; other site 471855001917 catalytic residue [active] 471855001918 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 471855001919 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 471855001920 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 471855001921 [4Fe-4S] binding site [ion binding]; other site 471855001922 molybdopterin cofactor binding site; other site 471855001923 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 471855001924 molybdopterin cofactor binding site; other site 471855001925 NapD protein; Region: NapD; cl01163 471855001926 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 471855001927 4Fe-4S binding domain; Region: Fer4_5; pfam12801 471855001928 4Fe-4S binding domain; Region: Fer4_5; pfam12801 471855001929 CcmE; Region: CcmE; cl00994 471855001930 CcmE; Region: CcmE; cl00994 471855001931 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 471855001932 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 471855001933 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855001934 Walker A/P-loop; other site 471855001935 ATP binding site [chemical binding]; other site 471855001936 Q-loop/lid; other site 471855001937 ABC transporter signature motif; other site 471855001938 Walker B; other site 471855001939 D-loop; other site 471855001940 H-loop/switch region; other site 471855001941 CcmB protein; Region: CcmB; cl01016 471855001942 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 471855001943 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 471855001944 alanine racemase; Reviewed; Region: alr; PRK00053 471855001945 active site 471855001946 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 471855001947 dimer interface [polypeptide binding]; other site 471855001948 substrate binding site [chemical binding]; other site 471855001949 catalytic residues [active] 471855001950 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 471855001951 Fe-S cluster binding site [ion binding]; other site 471855001952 active site 471855001953 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 471855001954 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 471855001955 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 471855001956 DNA binding site [nucleotide binding] 471855001957 active site 471855001958 Helix-turn-helix domains; Region: HTH; cl00088 471855001959 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 471855001960 classical (c) SDRs; Region: SDR_c; cd05233 471855001961 NAD(P) binding site [chemical binding]; other site 471855001962 active site 471855001963 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855001964 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 471855001965 active site 471855001966 ATP binding site [chemical binding]; other site 471855001967 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855001968 recombination factor protein RarA; Reviewed; Region: PRK13342 471855001969 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 471855001970 Walker A motif; other site 471855001971 ATP binding site [chemical binding]; other site 471855001972 Walker B motif; other site 471855001973 arginine finger; other site 471855001974 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 471855001975 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 471855001976 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 471855001977 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 471855001978 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 471855001979 motif 1; other site 471855001980 active site 471855001981 motif 2; other site 471855001982 motif 3; other site 471855001983 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 471855001984 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 471855001985 YceG-like family; Region: YceG; pfam02618 471855001986 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 471855001987 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 471855001988 dimerization interface [polypeptide binding]; other site 471855001989 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; Region: YqeG_hyp_ppase 471855001990 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 471855001991 active site 471855001992 motif I; other site 471855001993 motif II; other site 471855001994 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cl00323 471855001995 Tetramer interface [polypeptide binding]; other site 471855001996 active site 471855001997 FMN-binding site [chemical binding]; other site 471855001998 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 471855001999 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 471855002000 ADP binding site [chemical binding]; other site 471855002001 magnesium binding site [ion binding]; other site 471855002002 putative shikimate binding site; other site 471855002003 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 471855002004 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 471855002005 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 471855002006 active site 471855002007 elongation factor P; Validated; Region: PRK00529 471855002008 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 471855002009 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 471855002010 RNA binding site [nucleotide binding]; other site 471855002011 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 471855002012 RNA binding site [nucleotide binding]; other site 471855002013 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855002014 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855002015 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855002016 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855002017 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855002018 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855002019 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855002020 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855002021 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 471855002022 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 471855002023 pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional; Region: PRK14028 471855002024 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 471855002025 4Fe-4S binding domain; Region: Fer4; cl02805 471855002026 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855002027 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855002028 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 471855002029 molybdopterin cofactor binding site; other site 471855002030 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 471855002031 molybdopterin cofactor binding site; other site 471855002032 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 471855002033 Amidinotransferase; Region: Amidinotransf; cl12043 471855002034 pyruvate carboxylase subunit B; Validated; Region: PRK09282 471855002035 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 471855002036 active site 471855002037 catalytic residues [active] 471855002038 metal binding site [ion binding]; metal-binding site 471855002039 homodimer binding site [polypeptide binding]; other site 471855002040 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 471855002041 carboxyltransferase (CT) interaction site; other site 471855002042 biotinylation site [posttranslational modification]; other site 471855002043 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 471855002044 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 471855002045 ATP-grasp domain; Region: ATP-grasp_4; cl03087 471855002046 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 471855002047 Asp23 family; Region: Asp23; cl00574 471855002048 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 471855002049 putative RNA binding site [nucleotide binding]; other site 471855002050 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 471855002051 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 471855002052 TPP-binding site; other site 471855002053 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 471855002054 PYR/PP interface [polypeptide binding]; other site 471855002055 dimer interface [polypeptide binding]; other site 471855002056 TPP binding site [chemical binding]; other site 471855002057 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 471855002058 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 471855002059 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 471855002060 RNA binding surface [nucleotide binding]; other site 471855002061 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 471855002062 S-adenosylmethionine binding site [chemical binding]; other site 471855002063 histone acetyltransferase, ELP3 family; Region: ELP3; TIGR01211 471855002064 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 471855002065 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 471855002066 Methyltransferase domain; Region: Methyltransf_31; pfam13847 471855002067 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 471855002068 S-adenosylmethionine binding site [chemical binding]; other site 471855002069 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 471855002070 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 471855002071 VanZ like family; Region: VanZ; cl01971 471855002072 RDD family; Region: RDD; cl00746 471855002073 Protein of unknown function (DUF2984); Region: DUF2984; cl12752 471855002074 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 471855002075 catalytic residues [active] 471855002076 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 471855002077 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 471855002078 DNA-binding site [nucleotide binding]; DNA binding site 471855002079 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 471855002080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855002081 homodimer interface [polypeptide binding]; other site 471855002082 catalytic residue [active] 471855002083 Cytochrome c552; Region: Cytochrom_C552; pfam02335 471855002084 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 471855002085 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 471855002086 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 471855002087 catalytic residue [active] 471855002088 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 471855002089 rRNA interaction site [nucleotide binding]; other site 471855002090 S8 interaction site; other site 471855002091 putative laminin-1 binding site; other site 471855002092 elongation factor Ts; Provisional; Region: tsf; PRK09377 471855002093 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 471855002094 Elongation factor TS; Region: EF_TS; pfam00889 471855002095 Elongation factor TS; Region: EF_TS; pfam00889 471855002096 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 471855002097 active site 471855002098 catalytic site [active] 471855002099 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 471855002100 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 471855002101 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 471855002102 Phage Terminase; Region: Terminase_1; pfam03354 471855002103 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 471855002104 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 471855002105 Phage capsid family; Region: Phage_capsid; pfam05065 471855002106 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 471855002107 Phage-related protein [Function unknown]; Region: COG4695; cl01923 471855002108 Phage portal protein; Region: Phage_portal; pfam04860 471855002109 DNA primase, catalytic core; Region: dnaG; TIGR01391 471855002110 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 471855002111 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; cd00188 471855002112 active site 471855002113 metal binding site [ion binding]; metal-binding site 471855002114 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 471855002115 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 471855002116 non-specific DNA binding site [nucleotide binding]; other site 471855002117 salt bridge; other site 471855002118 sequence-specific DNA binding site [nucleotide binding]; other site 471855002119 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 471855002120 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 471855002121 Int/Topo IB signature motif; other site 471855002122 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 471855002123 Transglycosylase; Region: Transgly; cl07896 471855002124 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 471855002125 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 471855002126 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 471855002127 Peptidase family U32; Region: Peptidase_U32; cl03113 471855002128 Collagenase; Region: DUF3656; pfam12392 471855002129 Peptidase family U32; Region: Peptidase_U32; cl03113 471855002130 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 471855002131 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 471855002132 active site 471855002133 HIGH motif; other site 471855002134 dimer interface [polypeptide binding]; other site 471855002135 KMSKS motif; other site 471855002136 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 471855002137 aconitate hydratase; Validated; Region: PRK09277 471855002138 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 471855002139 substrate binding site [chemical binding]; other site 471855002140 ligand binding site [chemical binding]; other site 471855002141 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 471855002142 substrate binding site [chemical binding]; other site 471855002143 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 471855002144 23S rRNA interface [nucleotide binding]; other site 471855002145 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 471855002146 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 471855002147 core dimer interface [polypeptide binding]; other site 471855002148 peripheral dimer interface [polypeptide binding]; other site 471855002149 L10 interface [polypeptide binding]; other site 471855002150 L11 interface [polypeptide binding]; other site 471855002151 putative EF-Tu interaction site [polypeptide binding]; other site 471855002152 putative EF-G interaction site [polypeptide binding]; other site 471855002153 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 471855002154 putative deacylase active site [active] 471855002155 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 471855002156 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 471855002157 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 471855002158 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855002159 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 471855002160 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 471855002161 additional DNA contacts [nucleotide binding]; other site 471855002162 mismatch recognition site; other site 471855002163 active site 471855002164 zinc binding site [ion binding]; other site 471855002165 DNA intercalation site [nucleotide binding]; other site 471855002166 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 471855002167 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 471855002168 dimer interface [polypeptide binding]; other site 471855002169 PYR/PP interface [polypeptide binding]; other site 471855002170 TPP binding site [chemical binding]; other site 471855002171 substrate binding site [chemical binding]; other site 471855002172 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 471855002173 Domain of unknown function; Region: EKR; cl11037 471855002174 4Fe-4S binding domain; Region: Fer4; cl02805 471855002175 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 471855002176 TPP-binding site [chemical binding]; other site 471855002177 dimer interface [polypeptide binding]; other site 471855002178 RyR domain; Region: RyR; pfam02026 471855002179 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855002180 TIR domain; Region: TIR_2; cl15770 471855002181 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 471855002182 non-specific DNA binding site [nucleotide binding]; other site 471855002183 salt bridge; other site 471855002184 sequence-specific DNA binding site [nucleotide binding]; other site 471855002185 ankyrin repeat protein; Provisional; Region: PHA02878 471855002186 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 471855002187 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 471855002188 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 471855002189 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 471855002190 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 471855002191 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 471855002192 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 471855002193 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 471855002194 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 471855002195 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 471855002196 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 471855002197 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 471855002198 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 471855002199 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 471855002200 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 471855002201 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 471855002202 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 471855002203 catalytic residue [active] 471855002204 elongation factor Tu; Reviewed; Region: PRK00049 471855002205 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 471855002206 G1 box; other site 471855002207 GEF interaction site [polypeptide binding]; other site 471855002208 GTP/Mg2+ binding site [chemical binding]; other site 471855002209 Switch I region; other site 471855002210 G2 box; other site 471855002211 G3 box; other site 471855002212 Switch II region; other site 471855002213 G4 box; other site 471855002214 G5 box; other site 471855002215 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 471855002216 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 471855002217 Antibiotic Binding Site [chemical binding]; other site 471855002218 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 471855002219 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 471855002220 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 471855002221 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 471855002222 putative homodimer interface [polypeptide binding]; other site 471855002223 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 471855002224 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 471855002225 23S rRNA interface [nucleotide binding]; other site 471855002226 L7/L12 interface [polypeptide binding]; other site 471855002227 putative thiostrepton binding site; other site 471855002228 L25 interface [polypeptide binding]; other site 471855002229 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 471855002230 mRNA/rRNA interface [nucleotide binding]; other site 471855002231 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 471855002232 active site 471855002233 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 471855002234 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 471855002235 CTP synthetase; Validated; Region: pyrG; PRK05380 471855002236 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 471855002237 Catalytic site [active] 471855002238 active site 471855002239 UTP binding site [chemical binding]; other site 471855002240 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 471855002241 active site 471855002242 putative oxyanion hole; other site 471855002243 catalytic triad [active] 471855002244 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 471855002245 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 471855002246 Int/Topo IB signature motif; other site 471855002247 active site 471855002248 cell division protein MraZ; Reviewed; Region: PRK00326 471855002249 MraZ protein; Region: MraZ; pfam02381 471855002250 MraZ protein; Region: MraZ; pfam02381 471855002251 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 471855002252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855002253 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 471855002254 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 471855002255 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 471855002256 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 471855002257 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 471855002258 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 471855002259 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 471855002260 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 471855002261 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 471855002262 Mg++ binding site [ion binding]; other site 471855002263 putative catalytic motif [active] 471855002264 putative substrate binding site [chemical binding]; other site 471855002265 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 471855002266 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 471855002267 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 471855002268 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 471855002269 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 471855002270 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 471855002271 active site 471855002272 homodimer interface [polypeptide binding]; other site 471855002273 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 471855002274 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 471855002275 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 471855002276 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 471855002277 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 471855002278 FAD binding domain; Region: FAD_binding_4; pfam01565 471855002279 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 471855002280 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 471855002281 cell division protein FtsZ; Validated; Region: PRK09330 471855002282 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 471855002283 nucleotide binding site [chemical binding]; other site 471855002284 SulA interaction site; other site 471855002285 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 471855002286 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 471855002287 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 471855002288 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 471855002289 catalytic residue [active] 471855002290 Protein of unknown function (DUF552); Region: DUF552; cl00775 471855002291 YGGT family; Region: YGGT; cl00508 471855002292 DivIVA protein; Region: DivIVA; pfam05103 471855002293 DivIVA domain; Region: DivI1A_domain; TIGR03544 471855002294 Thiamine pyrophosphokinase; Region: TPK; cd07995 471855002295 active site 471855002296 dimerization interface [polypeptide binding]; other site 471855002297 thiamine binding site [chemical binding]; other site 471855002298 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 471855002299 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 471855002300 active site 471855002301 NTP binding site [chemical binding]; other site 471855002302 metal binding triad [ion binding]; metal-binding site 471855002303 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 471855002304 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 471855002305 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 471855002306 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855002307 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 471855002308 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 471855002309 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 471855002310 SEC-C motif; Region: SEC-C; pfam02810 471855002311 peptide chain release factor 2; Validated; Region: prfB; PRK00578 471855002312 RF-1 domain; Region: RF-1; cl02875 471855002313 RF-1 domain; Region: RF-1; cl02875 471855002314 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 471855002315 TPP-binding site [chemical binding]; other site 471855002316 dimer interface [polypeptide binding]; other site 471855002317 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 471855002318 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 471855002319 PYR/PP interface [polypeptide binding]; other site 471855002320 dimer interface [polypeptide binding]; other site 471855002321 TPP binding site [chemical binding]; other site 471855002322 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 471855002323 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 471855002324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855002325 Walker A/P-loop; other site 471855002326 ATP binding site [chemical binding]; other site 471855002327 Q-loop/lid; other site 471855002328 ABC transporter signature motif; other site 471855002329 Walker B; other site 471855002330 D-loop; other site 471855002331 H-loop/switch region; other site 471855002332 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 471855002333 FtsX-like permease family; Region: FtsX; cl15850 471855002334 FtsX-like permease family; Region: FtsX; cl15850 471855002335 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 471855002336 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 471855002337 protein binding site [polypeptide binding]; other site 471855002338 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 471855002339 Catalytic dyad [active] 471855002340 ribonuclease R; Region: RNase_R; TIGR02063 471855002341 RNB domain; Region: RNB; pfam00773 471855002342 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 471855002343 RNA binding site [nucleotide binding]; other site 471855002344 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 471855002345 SmpB-tmRNA interface; other site 471855002346 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 471855002347 ribonuclease PH; Reviewed; Region: rph; PRK00173 471855002348 Ribonuclease PH; Region: RNase_PH_bact; cd11362 471855002349 hexamer interface [polypeptide binding]; other site 471855002350 active site 471855002351 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 471855002352 active site 471855002353 dimerization interface [polypeptide binding]; other site 471855002354 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 471855002355 TRAM domain; Region: TRAM; cl01282 471855002356 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 471855002357 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 471855002358 active site 471855002359 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 471855002360 binding surface 471855002361 TPR motif; other site 471855002362 TPR repeat; Region: TPR_11; pfam13414 471855002363 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 471855002364 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 471855002365 active site 471855002366 multimer interface [polypeptide binding]; other site 471855002367 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 471855002368 Helix-turn-helix domains; Region: HTH; cl00088 471855002369 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 471855002370 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 471855002371 active site 471855002372 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 471855002373 Ligand Binding Site [chemical binding]; other site 471855002374 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 471855002375 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 471855002376 oxidoreductase; Provisional; Region: PRK10015 471855002377 ferredoxin-like protein FixX; Provisional; Region: PRK15449 471855002378 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 471855002379 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 471855002380 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 471855002381 active site 471855002382 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 471855002383 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 471855002384 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 471855002385 active site 471855002386 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855002387 Helix-turn-helix domains; Region: HTH; cl00088 471855002388 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 471855002389 dimerization interface [polypeptide binding]; other site 471855002390 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 471855002391 AMP-binding enzyme; Region: AMP-binding; cl15778 471855002392 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 471855002393 CoA-transferase family III; Region: CoA_transf_3; pfam02515 471855002394 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; cl11420 471855002395 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 471855002396 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 471855002397 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 471855002398 Sm1 motif; other site 471855002399 D3 - B interaction site; other site 471855002400 D1 - D2 interaction site; other site 471855002401 Hfq - Hfq interaction site; other site 471855002402 RNA binding pocket [nucleotide binding]; other site 471855002403 Sm2 motif; other site 471855002404 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 471855002405 NusA N-terminal domain; Region: NusA_N; pfam08529 471855002406 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 471855002407 RNA binding site [nucleotide binding]; other site 471855002408 homodimer interface [polypeptide binding]; other site 471855002409 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 471855002410 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 471855002411 G-X-X-G motif; other site 471855002412 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 471855002413 translation initiation factor IF-2; Region: IF-2; TIGR00487 471855002414 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 471855002415 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 471855002416 G1 box; other site 471855002417 putative GEF interaction site [polypeptide binding]; other site 471855002418 GTP/Mg2+ binding site [chemical binding]; other site 471855002419 Switch I region; other site 471855002420 G2 box; other site 471855002421 G3 box; other site 471855002422 Switch II region; other site 471855002423 G4 box; other site 471855002424 G5 box; other site 471855002425 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 471855002426 Translation-initiation factor 2; Region: IF-2; pfam11987 471855002427 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 471855002428 Ribosome-binding factor A; Region: RBFA; cl00542 471855002429 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 471855002430 DHH family; Region: DHH; pfam01368 471855002431 DHHA1 domain; Region: DHHA1; pfam02272 471855002432 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 471855002433 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 471855002434 RNA binding site [nucleotide binding]; other site 471855002435 active site 471855002436 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 471855002437 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 471855002438 active site 471855002439 Riboflavin kinase; Region: Flavokinase; cl03312 471855002440 DNA primase; Validated; Region: dnaG; PRK05667 471855002441 CHC2 zinc finger; Region: zf-CHC2; cl15369 471855002442 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 471855002443 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 471855002444 active site 471855002445 metal binding site [ion binding]; metal-binding site 471855002446 interdomain interaction site; other site 471855002447 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 471855002448 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 471855002449 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 471855002450 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 471855002451 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 471855002452 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 471855002453 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 471855002454 DNA binding residues [nucleotide binding] 471855002455 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 471855002456 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 471855002457 TfoX N-terminal domain; Region: TfoX_N; cl01167 471855002458 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 471855002459 DNA-binding interface [nucleotide binding]; DNA binding site 471855002460 Helix-turn-helix domains; Region: HTH; cl00088 471855002461 DNA binding residues [nucleotide binding] 471855002462 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 471855002463 FOG: CBS domain [General function prediction only]; Region: COG0517 471855002464 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 471855002465 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 471855002466 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855002467 active site 471855002468 ATP binding site [chemical binding]; other site 471855002469 substrate binding site [chemical binding]; other site 471855002470 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855002471 substrate binding site [chemical binding]; other site 471855002472 activation loop (A-loop); other site 471855002473 activation loop (A-loop); other site 471855002474 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 471855002475 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 471855002476 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855002477 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855002478 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 471855002479 Rubredoxin; Region: Rubredoxin; pfam00301 471855002480 iron binding site [ion binding]; other site 471855002481 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 471855002482 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 471855002483 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 471855002484 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 471855002485 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 471855002486 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 471855002487 ABC transporter; Region: ABC_tran_2; pfam12848 471855002488 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 471855002489 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 471855002490 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 471855002491 active site 471855002492 putative substrate binding region [chemical binding]; other site 471855002493 ScpA/B protein; Region: ScpA_ScpB; cl00598 471855002494 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 471855002495 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 471855002496 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 471855002497 RNA binding surface [nucleotide binding]; other site 471855002498 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 471855002499 active site 471855002500 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 471855002501 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 471855002502 hinge; other site 471855002503 active site 471855002504 cytidylate kinase; Provisional; Region: cmk; PRK00023 471855002505 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 471855002506 CMP-binding site; other site 471855002507 The sites determining sugar specificity; other site 471855002508 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 471855002509 putative acyl-acceptor binding pocket; other site 471855002510 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 471855002511 LytB protein; Region: LYTB; cl00507 471855002512 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 471855002513 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 471855002514 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 471855002515 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 471855002516 Protein of unknown function (DUF512); Region: DUF512; pfam04459 471855002517 GTP-binding protein Der; Reviewed; Region: PRK00093 471855002518 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 471855002519 G1 box; other site 471855002520 GTP/Mg2+ binding site [chemical binding]; other site 471855002521 Switch I region; other site 471855002522 G2 box; other site 471855002523 Switch II region; other site 471855002524 G3 box; other site 471855002525 G4 box; other site 471855002526 G5 box; other site 471855002527 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 471855002528 G1 box; other site 471855002529 GTP/Mg2+ binding site [chemical binding]; other site 471855002530 Switch I region; other site 471855002531 G2 box; other site 471855002532 G3 box; other site 471855002533 Switch II region; other site 471855002534 G4 box; other site 471855002535 G5 box; other site 471855002536 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 471855002537 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 471855002538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855002539 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 471855002540 Double zinc ribbon; Region: DZR; pfam12773 471855002541 Double zinc ribbon; Region: DZR; pfam12773 471855002542 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 471855002543 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 471855002544 active site 471855002545 HIRAN domain; Region: HIRAN; cl07418 471855002546 Membrane transport protein; Region: Mem_trans; cl09117 471855002547 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 471855002548 RNAase interaction site [polypeptide binding]; other site 471855002549 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 471855002550 active site clefts [active] 471855002551 zinc binding site [ion binding]; other site 471855002552 dimer interface [polypeptide binding]; other site 471855002553 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 471855002554 active site 471855002555 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855002556 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 471855002557 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 471855002558 active site 471855002559 Septum formation initiator; Region: DivIC; cl11433 471855002560 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 471855002561 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 471855002562 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855002563 hypothetical protein; Provisional; Region: PRK13795 471855002564 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 471855002565 4Fe-4S binding domain; Region: Fer4; cl02805 471855002566 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 471855002567 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 471855002568 HIGH motif; other site 471855002569 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 471855002570 active site 471855002571 KMSKS motif; other site 471855002572 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 471855002573 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 471855002574 S-adenosylmethionine synthetase; Validated; Region: PRK05250 471855002575 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 471855002576 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 471855002577 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 471855002578 primosome assembly protein PriA; Validated; Region: PRK05580 471855002579 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 471855002580 ATP binding site [chemical binding]; other site 471855002581 putative Mg++ binding site [ion binding]; other site 471855002582 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855002583 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 471855002584 active site 471855002585 catalytic residues [active] 471855002586 metal binding site [ion binding]; metal-binding site 471855002587 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 471855002588 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 471855002589 putative active site [active] 471855002590 substrate binding site [chemical binding]; other site 471855002591 putative cosubstrate binding site; other site 471855002592 catalytic site [active] 471855002593 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 471855002594 substrate binding site [chemical binding]; other site 471855002595 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 471855002596 putative RNA binding site [nucleotide binding]; other site 471855002597 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 471855002598 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 471855002599 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 471855002600 DNA binding site [nucleotide binding] 471855002601 active site 471855002602 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 471855002603 substrate binding site [chemical binding]; other site 471855002604 hexamer interface [polypeptide binding]; other site 471855002605 metal binding site [ion binding]; metal-binding site 471855002606 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 471855002607 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 471855002608 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 471855002609 catalytic residue [active] 471855002610 Uncharacterized conserved protein [Function unknown]; Region: COG0327 471855002611 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 471855002612 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 471855002613 Putative zinc ribbon domain; Region: DUF164; pfam02591 471855002614 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 471855002615 Asp23 family; Region: Asp23; cl00574 471855002616 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 471855002617 DAK2 domain; Region: Dak2; cl03685 471855002618 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 471855002619 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 471855002620 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 471855002621 generic binding surface II; other site 471855002622 ssDNA binding site; other site 471855002623 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 471855002624 ATP binding site [chemical binding]; other site 471855002625 putative Mg++ binding site [ion binding]; other site 471855002626 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 471855002627 nucleotide binding region [chemical binding]; other site 471855002628 ATP-binding site [chemical binding]; other site 471855002629 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 471855002630 S-adenosylmethionine binding site [chemical binding]; other site 471855002631 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 471855002632 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 471855002633 active site 471855002634 (T/H)XGH motif; other site 471855002635 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 471855002636 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 471855002637 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 471855002638 ribonuclease III; Reviewed; Region: rnc; PRK00102 471855002639 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 471855002640 dimerization interface [polypeptide binding]; other site 471855002641 active site 471855002642 metal binding site [ion binding]; metal-binding site 471855002643 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 471855002644 dsRNA binding site [nucleotide binding]; other site 471855002645 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 471855002646 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 471855002647 Walker A/P-loop; other site 471855002648 ATP binding site [chemical binding]; other site 471855002649 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 471855002650 ABC transporter signature motif; other site 471855002651 Walker B; other site 471855002652 D-loop; other site 471855002653 H-loop/switch region; other site 471855002654 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 471855002655 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 471855002656 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 471855002657 P loop; other site 471855002658 GTP binding site [chemical binding]; other site 471855002659 signal recognition particle protein; Provisional; Region: PRK10867 471855002660 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 471855002661 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 471855002662 P loop; other site 471855002663 GTP binding site [chemical binding]; other site 471855002664 Signal peptide binding domain; Region: SRP_SPB; pfam02978 471855002665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855002666 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 471855002667 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 471855002668 Phosphoglycerate kinase; Region: PGK; pfam00162 471855002669 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 471855002670 substrate binding site [chemical binding]; other site 471855002671 hinge regions; other site 471855002672 ADP binding site [chemical binding]; other site 471855002673 catalytic site [active] 471855002674 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 471855002675 substrate binding site [chemical binding]; other site 471855002676 dimer interface [polypeptide binding]; other site 471855002677 catalytic triad [active] 471855002678 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 471855002679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855002680 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 471855002681 Tetramer interface [polypeptide binding]; other site 471855002682 active site 471855002683 FMN-binding site [chemical binding]; other site 471855002684 Chorismate mutase type II; Region: CM_2; cl00693 471855002685 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 471855002686 Prephenate dehydratase; Region: PDT; pfam00800 471855002687 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 471855002688 putative L-Phe binding site [chemical binding]; other site 471855002689 Preprotein translocase SecG subunit; Region: SecG; cl09123 471855002690 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 471855002691 NeuB family; Region: NeuB; cl00496 471855002692 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 471855002693 active site 471855002694 dimer interface [polypeptide binding]; other site 471855002695 metal binding site [ion binding]; metal-binding site 471855002696 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 471855002697 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 471855002698 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 471855002699 DNA binding residues [nucleotide binding] 471855002700 SLBB domain; Region: SLBB; pfam10531 471855002701 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 471855002702 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 471855002703 Competence protein; Region: Competence; cl00471 471855002704 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855002705 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 471855002706 DNA polymerase III, delta subunit; Region: holA; TIGR01128 471855002707 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 471855002708 Predicted GTPase [General function prediction only]; Region: COG0218 471855002709 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 471855002710 G1 box; other site 471855002711 GTP/Mg2+ binding site [chemical binding]; other site 471855002712 Switch I region; other site 471855002713 G2 box; other site 471855002714 G3 box; other site 471855002715 Switch II region; other site 471855002716 G4 box; other site 471855002717 G5 box; other site 471855002718 GTP-binding protein LepA; Provisional; Region: PRK05433 471855002719 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 471855002720 G1 box; other site 471855002721 putative GEF interaction site [polypeptide binding]; other site 471855002722 GTP/Mg2+ binding site [chemical binding]; other site 471855002723 Switch I region; other site 471855002724 G2 box; other site 471855002725 G3 box; other site 471855002726 Switch II region; other site 471855002727 G4 box; other site 471855002728 G5 box; other site 471855002729 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 471855002730 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 471855002731 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 471855002732 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 471855002733 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 471855002734 FeS/SAM binding site; other site 471855002735 HemN C-terminal domain; Region: HemN_C; pfam06969 471855002736 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 471855002737 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 471855002738 FMN binding site [chemical binding]; other site 471855002739 active site 471855002740 catalytic residues [active] 471855002741 substrate binding site [chemical binding]; other site 471855002742 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 471855002743 Helix-turn-helix domains; Region: HTH; cl00088 471855002744 HrcA protein C terminal domain; Region: HrcA; pfam01628 471855002745 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 471855002746 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 471855002747 HSP70 interaction site [polypeptide binding]; other site 471855002748 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 471855002749 Zn binding sites [ion binding]; other site 471855002750 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 471855002751 dimer interface [polypeptide binding]; other site 471855002752 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 471855002753 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 471855002754 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 471855002755 FeS/SAM binding site; other site 471855002756 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 471855002757 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 471855002758 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 471855002759 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 471855002760 RNA/DNA hybrid binding site [nucleotide binding]; other site 471855002761 active site 471855002762 Restriction endonuclease; Region: Mrr_cat; cl00516 471855002763 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 471855002764 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 471855002765 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 471855002766 Walker A motif; other site 471855002767 ATP binding site [chemical binding]; other site 471855002768 Walker B motif; other site 471855002769 arginine finger; other site 471855002770 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 471855002771 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 471855002772 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 471855002773 putative oxidoreductase; Provisional; Region: PRK13984 471855002774 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 471855002775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855002776 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 471855002777 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 471855002778 DNA binding site [nucleotide binding] 471855002779 Int/Topo IB signature motif; other site 471855002780 active site 471855002781 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 471855002782 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 471855002783 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 471855002784 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 471855002785 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 471855002786 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 471855002787 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 471855002788 dimer interface [polypeptide binding]; other site 471855002789 active site 471855002790 metal binding site [ion binding]; metal-binding site 471855002791 glutathione binding site [chemical binding]; other site 471855002792 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 471855002793 putative efflux protein, MATE family; Region: matE; TIGR00797 471855002794 MatE; Region: MatE; cl10513 471855002795 MatE; Region: MatE; cl10513 471855002796 glutamate dehydrogenase; Provisional; Region: PRK09414 471855002797 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 471855002798 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 471855002799 NAD(P) binding site [chemical binding]; other site 471855002800 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855002801 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 471855002802 RNA/DNA hybrid binding site [nucleotide binding]; other site 471855002803 active site 471855002804 TPR repeat; Region: TPR_11; pfam13414 471855002805 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 471855002806 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 471855002807 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 471855002808 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855002809 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 471855002810 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855002811 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 471855002812 Walker A/P-loop; other site 471855002813 ATP binding site [chemical binding]; other site 471855002814 Q-loop/lid; other site 471855002815 exonuclease subunit SbcC; Provisional; Region: PRK10246 471855002816 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 471855002817 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 471855002818 ABC transporter signature motif; other site 471855002819 Walker B; other site 471855002820 D-loop; other site 471855002821 H-loop/switch region; other site 471855002822 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 471855002823 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 471855002824 active site 471855002825 metal binding site [ion binding]; metal-binding site 471855002826 DNA binding site [nucleotide binding] 471855002827 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 471855002828 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 471855002829 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 471855002830 GIY-YIG motif/motif A; other site 471855002831 active site 471855002832 catalytic site [active] 471855002833 putative DNA binding site [nucleotide binding]; other site 471855002834 metal binding site [ion binding]; metal-binding site 471855002835 UvrB/uvrC motif; Region: UVR; pfam02151 471855002836 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 471855002837 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 471855002838 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 471855002839 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 471855002840 phosphate binding site [ion binding]; other site 471855002841 putative substrate binding pocket [chemical binding]; other site 471855002842 dimer interface [polypeptide binding]; other site 471855002843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 471855002844 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 471855002845 Helix-turn-helix domains; Region: HTH; cl00088 471855002846 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 471855002847 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 471855002848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855002849 homodimer interface [polypeptide binding]; other site 471855002850 catalytic residue [active] 471855002851 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 471855002852 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855002853 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 471855002854 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 471855002855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855002856 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 471855002857 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 471855002858 Protein of unknown function (DUF520); Region: DUF520; cl00723 471855002859 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 471855002860 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 471855002861 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 471855002862 FeS/SAM binding site; other site 471855002863 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 471855002864 Competence-damaged protein; Region: CinA; cl00666 471855002865 recombinase A; Provisional; Region: recA; PRK09354 471855002866 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 471855002867 hexamer interface [polypeptide binding]; other site 471855002868 Walker A motif; other site 471855002869 ATP binding site [chemical binding]; other site 471855002870 Walker B motif; other site 471855002871 RecX family; Region: RecX; cl00936 471855002872 phosphodiesterase; Provisional; Region: PRK12704 471855002873 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 471855002874 Zn2+ binding site [ion binding]; other site 471855002875 Mg2+ binding site [ion binding]; other site 471855002876 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 471855002877 ATP binding site [chemical binding]; other site 471855002878 Mg2+ binding site [ion binding]; other site 471855002879 G-X-G motif; other site 471855002880 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 471855002881 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 471855002882 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 471855002883 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 471855002884 FeS/SAM binding site; other site 471855002885 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 471855002886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855002887 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 471855002888 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 471855002889 HflX GTPase family; Region: HflX; cd01878 471855002890 G1 box; other site 471855002891 GTP/Mg2+ binding site [chemical binding]; other site 471855002892 Switch I region; other site 471855002893 G2 box; other site 471855002894 G3 box; other site 471855002895 Switch II region; other site 471855002896 G4 box; other site 471855002897 G5 box; other site 471855002898 LexA repressor; Validated; Region: PRK00215 471855002899 Helix-turn-helix domains; Region: HTH; cl00088 471855002900 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 471855002901 Catalytic site [active] 471855002902 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 471855002903 ATP cone domain; Region: ATP-cone; pfam03477 471855002904 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 471855002905 trimer interface [polypeptide binding]; other site 471855002906 active site 471855002907 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 471855002908 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 471855002909 Transposase; Region: DEDD_Tnp_IS110; pfam01548 471855002910 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 471855002911 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 471855002912 CoenzymeA binding site [chemical binding]; other site 471855002913 subunit interaction site [polypeptide binding]; other site 471855002914 PHB binding site; other site 471855002915 methionine aminopeptidase; Provisional; Region: PRK12318 471855002916 SEC-C motif; Region: SEC-C; pfam02810 471855002917 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 471855002918 active site 471855002919 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 471855002920 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 471855002921 active site 471855002922 HIGH motif; other site 471855002923 nucleotide binding site [chemical binding]; other site 471855002924 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 471855002925 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 471855002926 active site 471855002927 KMSKS motif; other site 471855002928 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 471855002929 tRNA binding surface [nucleotide binding]; other site 471855002930 anticodon binding site; other site 471855002931 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 471855002932 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 471855002933 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 471855002934 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 471855002935 RNA binding surface [nucleotide binding]; other site 471855002936 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 471855002937 active site 471855002938 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 471855002939 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 471855002940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855002941 homodimer interface [polypeptide binding]; other site 471855002942 catalytic residue [active] 471855002943 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 471855002944 16S/18S rRNA binding site [nucleotide binding]; other site 471855002945 S13e-L30e interaction site [polypeptide binding]; other site 471855002946 25S rRNA binding site [nucleotide binding]; other site 471855002947 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 471855002948 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 471855002949 RNase E interface [polypeptide binding]; other site 471855002950 trimer interface [polypeptide binding]; other site 471855002951 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 471855002952 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 471855002953 RNase E interface [polypeptide binding]; other site 471855002954 trimer interface [polypeptide binding]; other site 471855002955 active site 471855002956 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 471855002957 putative nucleic acid binding region [nucleotide binding]; other site 471855002958 G-X-X-G motif; other site 471855002959 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 471855002960 RNA binding site [nucleotide binding]; other site 471855002961 domain interface; other site 471855002962 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 471855002963 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 471855002964 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 471855002965 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 471855002966 RimM N-terminal domain; Region: RimM; pfam01782 471855002967 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 471855002968 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 471855002969 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 471855002970 Catalytic site [active] 471855002971 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 471855002972 dimer interface [polypeptide binding]; other site 471855002973 motif 1; other site 471855002974 active site 471855002975 motif 2; other site 471855002976 motif 3; other site 471855002977 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 471855002978 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 471855002979 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 471855002980 pyruvate phosphate dikinase; Provisional; Region: PRK09279 471855002981 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 471855002982 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 471855002983 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 471855002984 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 471855002985 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 471855002986 CAAX protease self-immunity; Region: Abi; cl00558 471855002987 cobalt transport protein CbiM; Provisional; Region: PRK07331 471855002988 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 471855002989 PDGLE domain; Region: PDGLE; cl07986 471855002990 Cobalt transport protein; Region: CbiQ; cl00463 471855002991 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 471855002992 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 471855002993 Walker A/P-loop; other site 471855002994 ATP binding site [chemical binding]; other site 471855002995 Q-loop/lid; other site 471855002996 ABC transporter signature motif; other site 471855002997 Walker B; other site 471855002998 D-loop; other site 471855002999 H-loop/switch region; other site 471855003000 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 471855003001 hypothetical protein; Provisional; Region: PRK00955 471855003002 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 471855003003 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 471855003004 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 471855003005 putative metal binding site [ion binding]; other site 471855003006 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 471855003007 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 471855003008 PrcB C-terminal; Region: PrcB_C; pfam14343 471855003009 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 471855003010 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 471855003011 Predicted acyl esterases [General function prediction only]; Region: COG2936 471855003012 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 471855003013 Phosphopantetheine attachment site; Region: PP-binding; cl09936 471855003014 Helix-turn-helix domains; Region: HTH; cl00088 471855003015 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 471855003016 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 471855003017 Transposase; Region: DEDD_Tnp_IS110; pfam01548 471855003018 Transposase IS200 like; Region: Y1_Tnp; cl00848 471855003019 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855003020 4Fe-4S binding domain; Region: Fer4; cl02805 471855003021 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 471855003022 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 471855003023 molybdopterin cofactor binding site; other site 471855003024 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 471855003025 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 471855003026 molybdopterin cofactor binding site; other site 471855003027 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 471855003028 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 471855003029 active site 471855003030 phosphorylation site [posttranslational modification] 471855003031 intermolecular recognition site; other site 471855003032 dimerization interface [polypeptide binding]; other site 471855003033 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 471855003034 DNA binding site [nucleotide binding] 471855003035 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 471855003036 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 471855003037 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 471855003038 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 471855003039 dimer interface [polypeptide binding]; other site 471855003040 phosphorylation site [posttranslational modification] 471855003041 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 471855003042 ATP binding site [chemical binding]; other site 471855003043 Mg2+ binding site [ion binding]; other site 471855003044 G-X-G motif; other site 471855003045 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855003046 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003047 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003048 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003049 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003050 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003051 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855003052 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 471855003053 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 471855003054 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 471855003055 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 471855003056 DNA binding residues [nucleotide binding] 471855003057 Putative zinc-finger; Region: zf-HC2; cl15806 471855003058 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 471855003059 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 471855003060 homodimer interface [polypeptide binding]; other site 471855003061 glycosyltransferase, MGT family; Region: MGT; TIGR01426 471855003062 active site 471855003063 TDP-binding site; other site 471855003064 acceptor substrate-binding pocket; other site 471855003065 RelB antitoxin; Region: RelB; cl01171 471855003066 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 471855003067 TM2 domain; Region: TM2; cl00984 471855003068 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 471855003069 active site 471855003070 8-oxo-dGMP binding site [chemical binding]; other site 471855003071 nudix motif; other site 471855003072 metal binding site [ion binding]; metal-binding site 471855003073 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 471855003074 PLD-like domain; Region: PLDc_2; pfam13091 471855003075 putative homodimer interface [polypeptide binding]; other site 471855003076 putative active site [active] 471855003077 catalytic site [active] 471855003078 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 471855003079 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 471855003080 ATP binding site [chemical binding]; other site 471855003081 putative Mg++ binding site [ion binding]; other site 471855003082 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 471855003083 nucleotide binding region [chemical binding]; other site 471855003084 ATP-binding site [chemical binding]; other site 471855003085 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 471855003086 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 471855003087 LytTr DNA-binding domain; Region: LytTR; cl04498 471855003088 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 471855003089 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 471855003090 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 471855003091 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 471855003092 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 471855003093 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 471855003094 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 471855003095 DNA binding residues [nucleotide binding] 471855003096 dimerization interface [polypeptide binding]; other site 471855003097 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 471855003098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855003099 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 471855003100 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 471855003101 tRNA; other site 471855003102 putative tRNA binding site [nucleotide binding]; other site 471855003103 putative NADP binding site [chemical binding]; other site 471855003104 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 471855003105 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 471855003106 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 471855003107 domain interfaces; other site 471855003108 active site 471855003109 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 471855003110 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 471855003111 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 471855003112 active site 471855003113 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 471855003114 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 471855003115 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 471855003116 FeS/SAM binding site; other site 471855003117 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 471855003118 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 471855003119 dimer interface [polypeptide binding]; other site 471855003120 active site 471855003121 Schiff base residues; other site 471855003122 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 471855003123 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 471855003124 FeS/SAM binding site; other site 471855003125 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 471855003126 Helix-turn-helix domains; Region: HTH; cl00088 471855003127 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 471855003128 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 471855003129 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 471855003130 inhibitor-cofactor binding pocket; inhibition site 471855003131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855003132 catalytic residue [active] 471855003133 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 471855003134 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 471855003135 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 471855003136 trigger factor; Region: tig; TIGR00115 471855003137 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 471855003138 SAP domain; Region: SAP; cl02640 471855003139 Clp protease; Region: CLP_protease; pfam00574 471855003140 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 471855003141 oligomer interface [polypeptide binding]; other site 471855003142 active site residues [active] 471855003143 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 471855003144 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 471855003145 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 471855003146 Walker A motif; other site 471855003147 ATP binding site [chemical binding]; other site 471855003148 Walker B motif; other site 471855003149 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 471855003150 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 471855003151 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 471855003152 active site 471855003153 HIGH motif; other site 471855003154 nucleotide binding site [chemical binding]; other site 471855003155 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 471855003156 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 471855003157 active site 471855003158 KMSKS motif; other site 471855003159 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 471855003160 tRNA binding surface [nucleotide binding]; other site 471855003161 anticodon binding site; other site 471855003162 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 471855003163 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 471855003164 Double zinc ribbon; Region: DZR; pfam12773 471855003165 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855003166 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855003167 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 471855003168 Recombination protein O N terminal; Region: RecO_N; cl15812 471855003169 Recombination protein O C terminal; Region: RecO_C; pfam02565 471855003170 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 471855003171 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 471855003172 nickel binding site [ion binding]; other site 471855003173 Predicted membrane protein [Function unknown]; Region: COG1511 471855003174 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 471855003175 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 471855003176 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 471855003177 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 471855003178 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 471855003179 NADP binding site [chemical binding]; other site 471855003180 active site 471855003181 putative substrate binding site [chemical binding]; other site 471855003182 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 471855003183 active site 471855003184 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 471855003185 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 471855003186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855003187 dihydroorotase; Validated; Region: pyrC; PRK09357 471855003188 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 471855003189 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 471855003190 active site 471855003191 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 471855003192 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 471855003193 FAD binding pocket [chemical binding]; other site 471855003194 FAD binding motif [chemical binding]; other site 471855003195 phosphate binding motif [ion binding]; other site 471855003196 beta-alpha-beta structure motif; other site 471855003197 NAD binding pocket [chemical binding]; other site 471855003198 Iron coordination center [ion binding]; other site 471855003199 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 471855003200 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 471855003201 heterodimer interface [polypeptide binding]; other site 471855003202 active site 471855003203 FMN binding site [chemical binding]; other site 471855003204 homodimer interface [polypeptide binding]; other site 471855003205 substrate binding site [chemical binding]; other site 471855003206 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 471855003207 active site 471855003208 dimer interface [polypeptide binding]; other site 471855003209 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 471855003210 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 471855003211 catalytic site [active] 471855003212 G-X2-G-X-G-K; other site 471855003213 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 471855003214 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 471855003215 THUMP domain; Region: THUMP; cl12076 471855003216 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 471855003217 Ligand Binding Site [chemical binding]; other site 471855003218 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855003219 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855003220 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003221 Integral membrane protein TerC family; Region: TerC; cl10468 471855003222 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 471855003223 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 471855003224 Rubredoxin; Region: Rubredoxin; pfam00301 471855003225 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 471855003226 Rubrerythrin [Energy production and conversion]; Region: COG1592 471855003227 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 471855003228 binuclear metal center [ion binding]; other site 471855003229 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 471855003230 iron binding site [ion binding]; other site 471855003231 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 471855003232 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 471855003233 putative Ca2+ binding sites [ion binding]; other site 471855003234 domain interaction interfaces; other site 471855003235 putative ligand binding motif; other site 471855003236 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 471855003237 putative Ca2+ binding sites [ion binding]; other site 471855003238 domain interaction interfaces; other site 471855003239 putative ligand binding motif; other site 471855003240 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 471855003241 Histidine kinase; Region: His_kinase; pfam06580 471855003242 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 471855003243 ATP binding site [chemical binding]; other site 471855003244 Mg2+ binding site [ion binding]; other site 471855003245 G-X-G motif; other site 471855003246 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 471855003247 Response regulator receiver domain; Region: Response_reg; pfam00072 471855003248 active site 471855003249 phosphorylation site [posttranslational modification] 471855003250 intermolecular recognition site; other site 471855003251 dimerization interface [polypeptide binding]; other site 471855003252 Helix-turn-helix domains; Region: HTH; cl00088 471855003253 DNA binding site [nucleotide binding] 471855003254 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 471855003255 amphipathic channel; other site 471855003256 Asn-Pro-Ala signature motifs; other site 471855003257 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 471855003258 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 471855003259 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 471855003260 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 471855003261 Walker A/P-loop; other site 471855003262 ATP binding site [chemical binding]; other site 471855003263 Q-loop/lid; other site 471855003264 ABC transporter signature motif; other site 471855003265 Walker B; other site 471855003266 D-loop; other site 471855003267 H-loop/switch region; other site 471855003268 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 471855003269 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 471855003270 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 471855003271 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 471855003272 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 471855003273 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 471855003274 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 471855003275 putative active site [active] 471855003276 catalytic site [active] 471855003277 putative substrate binding site [chemical binding]; other site 471855003278 HRDC domain; Region: HRDC; cl02578 471855003279 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 471855003280 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 471855003281 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 471855003282 generic binding surface II; other site 471855003283 generic binding surface I; other site 471855003284 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 471855003285 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 471855003286 nucleotide binding site/active site [active] 471855003287 HIT family signature motif; other site 471855003288 catalytic residue [active] 471855003289 Acetokinase family; Region: Acetate_kinase; cl01029 471855003290 propionate/acetate kinase; Provisional; Region: PRK12379 471855003291 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 471855003292 nucleotide binding site/active site [active] 471855003293 HIT family signature motif; other site 471855003294 catalytic residue [active] 471855003295 LytTr DNA-binding domain; Region: LytTR; cl04498 471855003296 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 471855003297 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 471855003298 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 471855003299 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 471855003300 active site 471855003301 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 471855003302 Radical SAM superfamily; Region: Radical_SAM; pfam04055 471855003303 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 471855003304 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 471855003305 active site 471855003306 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 471855003307 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; Region: NGN_Bact_2; cd09889 471855003308 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 471855003309 Bacterial sugar transferase; Region: Bac_transf; cl00939 471855003310 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 471855003311 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 471855003312 active site 471855003313 LicD family; Region: LicD; cl01378 471855003314 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 471855003315 LicD family; Region: LicD; cl01378 471855003316 MatE; Region: MatE; cl10513 471855003317 LicD family; Region: LicD; cl01378 471855003318 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 471855003319 non-specific DNA binding site [nucleotide binding]; other site 471855003320 salt bridge; other site 471855003321 sequence-specific DNA binding site [nucleotide binding]; other site 471855003322 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 471855003323 active site 471855003324 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 471855003325 substrate binding site; other site 471855003326 dimer interface; other site 471855003327 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 471855003328 active site 471855003329 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 471855003330 active site 471855003331 ATP binding site [chemical binding]; other site 471855003332 substrate binding site [chemical binding]; other site 471855003333 dimer interface [polypeptide binding]; other site 471855003334 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 471855003335 catalytic core [active] 471855003336 FRG domain; Region: FRG; cl07460 471855003337 CRISPR locus-related DNA-binding protein; Region: cas_HTH; TIGR01884 471855003338 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 471855003339 DNA binding residues [nucleotide binding] 471855003340 putrescine carbamoyltransferase; Provisional; Region: PRK02255 471855003341 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 471855003342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855003343 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 471855003344 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 471855003345 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 471855003346 carbamate kinase; Reviewed; Region: PRK12686 471855003347 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 471855003348 putative substrate binding site [chemical binding]; other site 471855003349 nucleotide binding site [chemical binding]; other site 471855003350 nucleotide binding site [chemical binding]; other site 471855003351 homodimer interface [polypeptide binding]; other site 471855003352 Predicted ATPases [General function prediction only]; Region: COG1106 471855003353 AAA domain; Region: AAA_21; pfam13304 471855003354 AAA domain; Region: AAA_21; pfam13304 471855003355 RloB-like protein; Region: RloB; pfam13707 471855003356 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 471855003357 Peptidase C26; Region: Peptidase_C26; pfam07722 471855003358 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 471855003359 conserved cys residue [active] 471855003360 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 471855003361 PemK-like protein; Region: PemK; cl00995 471855003362 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 471855003363 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 471855003364 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 471855003365 DNA binding residues [nucleotide binding] 471855003366 dimerization interface [polypeptide binding]; other site 471855003367 FAD binding domain; Region: FAD_binding_4; pfam01565 471855003368 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 471855003369 aldose dehydrogenase; Validated; Region: PRK06398 471855003370 classical (c) SDRs; Region: SDR_c; cd05233 471855003371 NAD(P) binding site [chemical binding]; other site 471855003372 active site 471855003373 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 471855003374 active site 471855003375 catalytic site [active] 471855003376 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 471855003377 Chain length determinant protein; Region: Wzz; cl15801 471855003378 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 471855003379 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 471855003380 Nucleotide binding site [chemical binding]; other site 471855003381 DTAP/Switch II; other site 471855003382 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 471855003383 Transposase IS200 like; Region: Y1_Tnp; cl00848 471855003384 Cobalt transport protein; Region: CbiQ; cl00463 471855003385 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 471855003386 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 471855003387 Walker A/P-loop; other site 471855003388 ATP binding site [chemical binding]; other site 471855003389 Q-loop/lid; other site 471855003390 ABC transporter signature motif; other site 471855003391 Walker B; other site 471855003392 D-loop; other site 471855003393 H-loop/switch region; other site 471855003394 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 471855003395 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 471855003396 Walker A/P-loop; other site 471855003397 ATP binding site [chemical binding]; other site 471855003398 Q-loop/lid; other site 471855003399 ABC transporter signature motif; other site 471855003400 Walker B; other site 471855003401 D-loop; other site 471855003402 H-loop/switch region; other site 471855003403 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855003404 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 471855003405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855003406 Walker A/P-loop; other site 471855003407 ATP binding site [chemical binding]; other site 471855003408 Q-loop/lid; other site 471855003409 ABC transporter signature motif; other site 471855003410 Walker B; other site 471855003411 D-loop; other site 471855003412 H-loop/switch region; other site 471855003413 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855003414 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855003415 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 471855003416 Walker A/P-loop; other site 471855003417 ATP binding site [chemical binding]; other site 471855003418 Q-loop/lid; other site 471855003419 ABC transporter signature motif; other site 471855003420 Walker B; other site 471855003421 D-loop; other site 471855003422 H-loop/switch region; other site 471855003423 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 471855003424 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855003425 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 471855003426 endonuclease III; Region: ENDO3c; smart00478 471855003427 minor groove reading motif; other site 471855003428 helix-hairpin-helix signature motif; other site 471855003429 substrate binding pocket [chemical binding]; other site 471855003430 active site 471855003431 Rubrerythrin [Energy production and conversion]; Region: COG1592 471855003432 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 471855003433 binuclear metal center [ion binding]; other site 471855003434 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 471855003435 iron binding site [ion binding]; other site 471855003436 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 471855003437 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 471855003438 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 471855003439 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 471855003440 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 471855003441 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855003442 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 471855003443 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 471855003444 homodimer interface [polypeptide binding]; other site 471855003445 substrate-cofactor binding pocket; other site 471855003446 catalytic residue [active] 471855003447 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 471855003448 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 471855003449 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855003450 GTPase Era; Reviewed; Region: era; PRK00089 471855003451 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 471855003452 G1 box; other site 471855003453 GTP/Mg2+ binding site [chemical binding]; other site 471855003454 Switch I region; other site 471855003455 G2 box; other site 471855003456 Switch II region; other site 471855003457 G3 box; other site 471855003458 G4 box; other site 471855003459 G5 box; other site 471855003460 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855003461 DNA polymerase I; Provisional; Region: PRK05755 471855003462 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 471855003463 active site 471855003464 metal binding site 1 [ion binding]; metal-binding site 471855003465 putative 5' ssDNA interaction site; other site 471855003466 metal binding site 3; metal-binding site 471855003467 metal binding site 2 [ion binding]; metal-binding site 471855003468 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 471855003469 putative DNA binding site [nucleotide binding]; other site 471855003470 putative metal binding site [ion binding]; other site 471855003471 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 471855003472 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 471855003473 active site 471855003474 DNA binding site [nucleotide binding] 471855003475 catalytic site [active] 471855003476 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 471855003477 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 471855003478 GTPase CgtA; Reviewed; Region: obgE; PRK12297 471855003479 GTP1/OBG; Region: GTP1_OBG; pfam01018 471855003480 Obg GTPase; Region: Obg; cd01898 471855003481 G1 box; other site 471855003482 GTP/Mg2+ binding site [chemical binding]; other site 471855003483 Switch I region; other site 471855003484 G2 box; other site 471855003485 G3 box; other site 471855003486 Switch II region; other site 471855003487 G4 box; other site 471855003488 G5 box; other site 471855003489 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 471855003490 gamma-glutamyl kinase; Provisional; Region: PRK05429 471855003491 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 471855003492 nucleotide binding site [chemical binding]; other site 471855003493 homotetrameric interface [polypeptide binding]; other site 471855003494 putative phosphate binding site [ion binding]; other site 471855003495 putative allosteric binding site; other site 471855003496 PUA domain; Region: PUA; cl00607 471855003497 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 471855003498 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 471855003499 active site 471855003500 (T/H)XGH motif; other site 471855003501 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 471855003502 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 471855003503 Oligomerisation domain; Region: Oligomerisation; cl00519 471855003504 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 471855003505 Membrane transport protein; Region: Mem_trans; cl09117 471855003506 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855003507 Helix-turn-helix domains; Region: HTH; cl00088 471855003508 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 471855003509 dimerization interface [polypeptide binding]; other site 471855003510 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 471855003511 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 471855003512 active site 471855003513 nucleophile elbow; other site 471855003514 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 471855003515 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 471855003516 dimer interface [polypeptide binding]; other site 471855003517 phosphorylation site [posttranslational modification] 471855003518 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 471855003519 ATP binding site [chemical binding]; other site 471855003520 Mg2+ binding site [ion binding]; other site 471855003521 G-X-G motif; other site 471855003522 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 471855003523 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 471855003524 active site 471855003525 phosphorylation site [posttranslational modification] 471855003526 intermolecular recognition site; other site 471855003527 dimerization interface [polypeptide binding]; other site 471855003528 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 471855003529 DNA binding site [nucleotide binding] 471855003530 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 471855003531 putative metal binding residues [ion binding]; other site 471855003532 signature motif; other site 471855003533 dimer interface [polypeptide binding]; other site 471855003534 polyP binding site; other site 471855003535 active site 471855003536 substrate binding site [chemical binding]; other site 471855003537 acceptor-phosphate pocket; other site 471855003538 AzlC protein; Region: AzlC; cl00570 471855003539 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 471855003540 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 471855003541 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 471855003542 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 471855003543 catalytic site [active] 471855003544 subunit interface [polypeptide binding]; other site 471855003545 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 471855003546 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 471855003547 ATP-grasp domain; Region: ATP-grasp_4; cl03087 471855003548 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 471855003549 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 471855003550 ATP-grasp domain; Region: ATP-grasp_4; cl03087 471855003551 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 471855003552 IMP binding site; other site 471855003553 dimer interface [polypeptide binding]; other site 471855003554 partial ornithine binding site; other site 471855003555 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 471855003556 Flavoprotein; Region: Flavoprotein; cl08021 471855003557 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 471855003558 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 471855003559 minor groove reading motif; other site 471855003560 helix-hairpin-helix signature motif; other site 471855003561 substrate binding pocket [chemical binding]; other site 471855003562 active site 471855003563 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 471855003564 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 471855003565 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 471855003566 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 471855003567 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 471855003568 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 471855003569 dimerization domain swap beta strand [polypeptide binding]; other site 471855003570 regulatory protein interface [polypeptide binding]; other site 471855003571 active site 471855003572 regulatory phosphorylation site [posttranslational modification]; other site 471855003573 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 471855003574 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 471855003575 active site 471855003576 phosphorylation site [posttranslational modification] 471855003577 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 471855003578 P-loop; other site 471855003579 active site 471855003580 phosphorylation site [posttranslational modification] 471855003581 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 471855003582 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 471855003583 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 471855003584 putative substrate binding site [chemical binding]; other site 471855003585 putative ATP binding site [chemical binding]; other site 471855003586 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 471855003587 DNA binding residues [nucleotide binding] 471855003588 dimerization interface [polypeptide binding]; other site 471855003589 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 471855003590 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 471855003591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855003592 NAD(P) binding site [chemical binding]; other site 471855003593 active site 471855003594 Methyltransferase domain; Region: Methyltransf_31; pfam13847 471855003595 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 471855003596 S-adenosylmethionine binding site [chemical binding]; other site 471855003597 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 471855003598 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 471855003599 NADH dehydrogenase; Region: NADHdh; cl00469 471855003600 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 471855003601 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 471855003602 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 471855003603 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 471855003604 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 471855003605 4Fe-4S binding domain; Region: Fer4; cl02805 471855003606 4Fe-4S binding domain; Region: Fer4; cl02805 471855003607 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 471855003608 AMP-binding enzyme; Region: AMP-binding; cl15778 471855003609 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 471855003610 ACT domain-containing protein [General function prediction only]; Region: COG4747 471855003611 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 471855003612 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 471855003613 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 471855003614 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 471855003615 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 471855003616 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855003617 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 471855003618 phosphopeptide binding site; other site 471855003619 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 471855003620 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 471855003621 dimer interface [polypeptide binding]; other site 471855003622 PYR/PP interface [polypeptide binding]; other site 471855003623 TPP binding site [chemical binding]; other site 471855003624 substrate binding site [chemical binding]; other site 471855003625 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 471855003626 TPP-binding site; other site 471855003627 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 471855003628 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 471855003629 active site 471855003630 HIGH motif; other site 471855003631 nucleotide binding site [chemical binding]; other site 471855003632 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 471855003633 active site 471855003634 KMSKS motif; other site 471855003635 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 471855003636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855003637 UbiA prenyltransferase family; Region: UbiA; cl00337 471855003638 CrcB-like protein; Region: CRCB; cl09114 471855003639 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 471855003640 putative tRNA-binding site [nucleotide binding]; other site 471855003641 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 471855003642 active site 471855003643 DNA polymerase IV; Validated; Region: PRK02406 471855003644 DNA binding site [nucleotide binding] 471855003645 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 471855003646 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 471855003647 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 471855003648 ATP binding site [chemical binding]; other site 471855003649 putative Mg++ binding site [ion binding]; other site 471855003650 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 471855003651 nucleotide binding region [chemical binding]; other site 471855003652 ATP-binding site [chemical binding]; other site 471855003653 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 471855003654 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 471855003655 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855003656 active site 471855003657 ATP binding site [chemical binding]; other site 471855003658 substrate binding site [chemical binding]; other site 471855003659 activation loop (A-loop); other site 471855003660 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 471855003661 Sel1 repeat; Region: Sel1; cl02723 471855003662 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 471855003663 phosphopeptide binding site; other site 471855003664 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855003665 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 471855003666 active site 471855003667 ATP binding site [chemical binding]; other site 471855003668 substrate binding site [chemical binding]; other site 471855003669 activation loop (A-loop); other site 471855003670 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 471855003671 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855003672 active site 471855003673 ATP binding site [chemical binding]; other site 471855003674 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 471855003675 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 471855003676 metal ion-dependent adhesion site (MIDAS); other site 471855003677 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855003678 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 471855003679 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855003680 Walker A/P-loop; other site 471855003681 ATP binding site [chemical binding]; other site 471855003682 Q-loop/lid; other site 471855003683 ABC transporter signature motif; other site 471855003684 Walker B; other site 471855003685 D-loop; other site 471855003686 H-loop/switch region; other site 471855003687 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 471855003688 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 471855003689 Walker A/P-loop; other site 471855003690 ATP binding site [chemical binding]; other site 471855003691 Q-loop/lid; other site 471855003692 ABC transporter signature motif; other site 471855003693 Walker B; other site 471855003694 D-loop; other site 471855003695 H-loop/switch region; other site 471855003696 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 471855003697 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 471855003698 Walker A/P-loop; other site 471855003699 ATP binding site [chemical binding]; other site 471855003700 Q-loop/lid; other site 471855003701 ABC transporter signature motif; other site 471855003702 Walker B; other site 471855003703 D-loop; other site 471855003704 H-loop/switch region; other site 471855003705 NMT1/THI5 like; Region: NMT1; pfam09084 471855003706 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 471855003707 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 471855003708 putative PBP binding loops; other site 471855003709 dimer interface [polypeptide binding]; other site 471855003710 ABC-ATPase subunit interface; other site 471855003711 Domain of unknown function DUF77; Region: DUF77; cl00307 471855003712 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 471855003713 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 471855003714 dimerization interface [polypeptide binding]; other site 471855003715 active site 471855003716 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 471855003717 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 471855003718 Helix-turn-helix domains; Region: HTH; cl00088 471855003719 alanine dehydrogenase; Validated; Region: PRK06046 471855003720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855003721 Helix-turn-helix domains; Region: HTH; cl00088 471855003722 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 471855003723 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 471855003724 active site 471855003725 phosphorylation site [posttranslational modification] 471855003726 intermolecular recognition site; other site 471855003727 dimerization interface [polypeptide binding]; other site 471855003728 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 471855003729 DNA binding site [nucleotide binding] 471855003730 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 471855003731 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 471855003732 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 471855003733 dimer interface [polypeptide binding]; other site 471855003734 phosphorylation site [posttranslational modification] 471855003735 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 471855003736 ATP binding site [chemical binding]; other site 471855003737 Mg2+ binding site [ion binding]; other site 471855003738 G-X-G motif; other site 471855003739 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 471855003740 transmembrane helices; other site 471855003741 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 471855003742 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 471855003743 FeS/SAM binding site; other site 471855003744 hypothetical protein; Validated; Region: PRK07121 471855003745 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855003746 Helix-turn-helix domains; Region: HTH; cl00088 471855003747 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 471855003748 dimerization interface [polypeptide binding]; other site 471855003749 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 471855003750 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 471855003751 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 471855003752 E3 interaction surface; other site 471855003753 lipoyl attachment site [posttranslational modification]; other site 471855003754 Pyruvate carboxylase [Energy production and conversion]; Region: PycA; COG1038 471855003755 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 471855003756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855003757 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 471855003758 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 471855003759 OsmC-like protein; Region: OsmC; cl00767 471855003760 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 471855003761 metal ion-dependent adhesion site (MIDAS); other site 471855003762 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 471855003763 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 471855003764 Walker A motif; other site 471855003765 ATP binding site [chemical binding]; other site 471855003766 Walker B motif; other site 471855003767 arginine finger; other site 471855003768 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 471855003769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855003770 Fic family protein [Function unknown]; Region: COG3177 471855003771 RQC domain; Region: RQC; cl09632 471855003772 Restriction endonuclease; Region: Mrr_cat; cl00516 471855003773 Family description; Region: UvrD_C_2; cl15862 471855003774 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855003775 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 471855003776 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 471855003777 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 471855003778 Phage-related protein [Function unknown]; Region: COG4722; cl15832 471855003779 Phage tail protein; Region: Sipho_tail; pfam05709 471855003780 Minor capsid protein; Region: Minor_capsid_1; pfam10665 471855003781 Radical SAM superfamily; Region: Radical_SAM; pfam04055 471855003782 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 471855003783 FeS/SAM binding site; other site 471855003784 Predicted helicase [General function prediction only]; Region: COG4889 471855003785 Restriction endonuclease; Region: Mrr_cat; cl00516 471855003786 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 471855003787 ATP binding site [chemical binding]; other site 471855003788 putative Mg++ binding site [ion binding]; other site 471855003789 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855003790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855003791 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 471855003792 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 471855003793 non-specific DNA binding site [nucleotide binding]; other site 471855003794 salt bridge; other site 471855003795 sequence-specific DNA binding site [nucleotide binding]; other site 471855003796 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 471855003797 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 471855003798 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 471855003799 Int/Topo IB signature motif; other site 471855003800 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 471855003801 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 471855003802 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 471855003803 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 471855003804 FeS/SAM binding site; other site 471855003805 Domain of unknown function (DUF697); Region: DUF697; cl12064 471855003806 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 471855003807 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 471855003808 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 471855003809 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 471855003810 rod shape-determining protein MreD; Region: MreD; cl01087 471855003811 rod shape-determining protein MreC; Region: MreC; pfam04085 471855003812 rod shape-determining protein MreB; Provisional; Region: PRK13927 471855003813 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855003814 Cell division protein FtsA; Region: FtsA; cl11496 471855003815 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 471855003816 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 471855003817 S-adenosylmethionine binding site [chemical binding]; other site 471855003818 peptide chain release factor 1; Validated; Region: prfA; PRK00591 471855003819 RF-1 domain; Region: RF-1; cl02875 471855003820 RF-1 domain; Region: RF-1; cl02875 471855003821 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 471855003822 NMT1-like family; Region: NMT1_2; cl15260 471855003823 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 471855003824 catalytic residues [active] 471855003825 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 471855003826 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 471855003827 active site 471855003828 nucleophile elbow; other site 471855003829 OpgC protein; Region: OpgC_C; cl00792 471855003830 Acyltransferase family; Region: Acyl_transf_3; pfam01757 471855003831 Eukaryotic protein of unknown function (DUF914); Region: DUF914; pfam06027 471855003832 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 471855003833 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 471855003834 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 471855003835 Ligand binding site; other site 471855003836 Putative Catalytic site; other site 471855003837 DXD motif; other site 471855003838 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 471855003839 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 471855003840 Coenzyme A binding pocket [chemical binding]; other site 471855003841 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 471855003842 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 471855003843 inhibitor-cofactor binding pocket; inhibition site 471855003844 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855003845 catalytic residue [active] 471855003846 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 471855003847 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 471855003848 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 471855003849 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 471855003850 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 471855003851 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 471855003852 NAD binding site [chemical binding]; other site 471855003853 substrate binding site [chemical binding]; other site 471855003854 homodimer interface [polypeptide binding]; other site 471855003855 active site 471855003856 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 471855003857 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 471855003858 substrate binding site; other site 471855003859 tetramer interface; other site 471855003860 Formate-dependent phosphoribosylglycinamide formyltransferase (GAR transformylase) [Nucleotide transport and metabolism]; Region: PurT; COG0027 471855003861 ATP-grasp domain; Region: ATP-grasp_4; cl03087 471855003862 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 471855003863 active site 471855003864 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 471855003865 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 471855003866 active site 471855003867 catalytic residues [active] 471855003868 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855003869 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003870 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 471855003871 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855003872 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 471855003873 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003874 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 471855003875 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855003876 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003877 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855003878 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855003879 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003880 LicD family; Region: LicD; cl01378 471855003881 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 471855003882 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 471855003883 Helix-turn-helix domains; Region: HTH; cl00088 471855003884 Helix-turn-helix domains; Region: HTH; cl00088 471855003885 putative transposase OrfB; Reviewed; Region: PHA02517 471855003886 HTH-like domain; Region: HTH_21; pfam13276 471855003887 Integrase core domain; Region: rve; cl01316 471855003888 Integrase core domain; Region: rve_3; cl15866 471855003889 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855003890 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003891 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855003892 NlpC/P60 family; Region: NLPC_P60; cl11438 471855003893 LicD family; Region: LicD; cl01378 471855003894 LicD family; Region: LicD; cl01378 471855003895 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 471855003896 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 471855003897 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 471855003898 putative NAD(P) binding site [chemical binding]; other site 471855003899 catalytic Zn binding site [ion binding]; other site 471855003900 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 471855003901 substrate binding site; other site 471855003902 dimer interface; other site 471855003903 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 471855003904 active site 471855003905 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 471855003906 OpgC protein; Region: OpgC_C; cl00792 471855003907 Acyltransferase family; Region: Acyl_transf_3; pfam01757 471855003908 DHHW protein; Region: DHHW; pfam14286 471855003909 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 471855003910 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 471855003911 substrate binding site; other site 471855003912 dimer interface; other site 471855003913 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 471855003914 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 471855003915 putative NAD(P) binding site [chemical binding]; other site 471855003916 putative catalytic Zn binding site [ion binding]; other site 471855003917 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 471855003918 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 471855003919 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 471855003920 active site 471855003921 nucleotide binding site [chemical binding]; other site 471855003922 HIGH motif; other site 471855003923 KMSKS motif; other site 471855003924 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 471855003925 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 471855003926 Mg++ binding site [ion binding]; other site 471855003927 putative catalytic motif [active] 471855003928 substrate binding site [chemical binding]; other site 471855003929 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 471855003930 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 471855003931 Walker A/P-loop; other site 471855003932 ATP binding site [chemical binding]; other site 471855003933 Q-loop/lid; other site 471855003934 ABC transporter signature motif; other site 471855003935 Walker B; other site 471855003936 D-loop; other site 471855003937 H-loop/switch region; other site 471855003938 ABC-2 type transporter; Region: ABC2_membrane; cl11417 471855003939 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 471855003940 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 471855003941 EamA-like transporter family; Region: EamA; cl01037 471855003942 Helix-turn-helix domains; Region: HTH; cl00088 471855003943 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 471855003944 active site 471855003945 metal-binding site 471855003946 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 471855003947 active site 471855003948 ATP binding site [chemical binding]; other site 471855003949 substrate binding site [chemical binding]; other site 471855003950 dimer interface [polypeptide binding]; other site 471855003951 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 471855003952 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 471855003953 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 471855003954 Ligand Binding Site [chemical binding]; other site 471855003955 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 471855003956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855003957 UDP-galactopyranose mutase; Region: GLF; pfam03275 471855003958 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 471855003959 putative substrate translocation pore; other site 471855003960 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 471855003961 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 471855003962 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 471855003963 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 471855003964 Walker A/P-loop; other site 471855003965 ATP binding site [chemical binding]; other site 471855003966 Q-loop/lid; other site 471855003967 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 471855003968 ABC transporter signature motif; other site 471855003969 Walker B; other site 471855003970 D-loop; other site 471855003971 H-loop/switch region; other site 471855003972 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 471855003973 putative active site [active] 471855003974 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 471855003975 pyrophosphatase PpaX; Provisional; Region: PRK13288 471855003976 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 471855003977 motif II; other site 471855003978 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 471855003979 putative active site [active] 471855003980 dimerization interface [polypeptide binding]; other site 471855003981 putative tRNAtyr binding site [nucleotide binding]; other site 471855003982 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 471855003983 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 471855003984 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 471855003985 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 471855003986 ATP binding site [chemical binding]; other site 471855003987 putative Mg++ binding site [ion binding]; other site 471855003988 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 471855003989 nucleotide binding region [chemical binding]; other site 471855003990 ATP-binding site [chemical binding]; other site 471855003991 DEAD-like helicases superfamily; Region: DEXDc; smart00487 471855003992 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 471855003993 ATP binding site [chemical binding]; other site 471855003994 putative Mg++ binding site [ion binding]; other site 471855003995 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 471855003996 nucleotide binding region [chemical binding]; other site 471855003997 ATP-binding site [chemical binding]; other site 471855003998 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 471855003999 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 471855004000 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 471855004001 active site 471855004002 HIGH motif; other site 471855004003 dimer interface [polypeptide binding]; other site 471855004004 KMSKS motif; other site 471855004005 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004006 B3/4 domain; Region: B3_4; cl11458 471855004007 Uncharacterized conserved protein [Function unknown]; Region: COG1739 471855004008 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 471855004009 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 471855004010 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 471855004011 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 471855004012 FeS/SAM binding site; other site 471855004013 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 471855004014 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 471855004015 Walker A motif; other site 471855004016 ATP binding site [chemical binding]; other site 471855004017 Walker B motif; other site 471855004018 arginine finger; other site 471855004019 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 471855004020 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 471855004021 active site 471855004022 Protein kinase domain; Region: Pkinase; pfam00069 471855004023 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855004024 active site 471855004025 ATP binding site [chemical binding]; other site 471855004026 substrate binding site [chemical binding]; other site 471855004027 activation loop (A-loop); other site 471855004028 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 471855004029 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 471855004030 ABC transporter; Region: ABC_tran_2; pfam12848 471855004031 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 471855004032 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 471855004033 catalytic core [active] 471855004034 CHAD domain; Region: CHAD; cl10506 471855004035 Homoserine O-succinyltransferase; Region: HTS; pfam04204 471855004036 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 471855004037 proposed active site lysine [active] 471855004038 conserved cys residue [active] 471855004039 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 471855004040 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 471855004041 homodimer interface [polypeptide binding]; other site 471855004042 substrate-cofactor binding pocket; other site 471855004043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855004044 catalytic residue [active] 471855004045 Helix-turn-helix domains; Region: HTH; cl00088 471855004046 putative transposase OrfB; Reviewed; Region: PHA02517 471855004047 HTH-like domain; Region: HTH_21; pfam13276 471855004048 Integrase core domain; Region: rve; cl01316 471855004049 Integrase core domain; Region: rve_3; cl15866 471855004050 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 471855004051 active site 471855004052 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 471855004053 FAD binding domain; Region: FAD_binding_4; pfam01565 471855004054 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 471855004055 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 471855004056 ArsC family; Region: ArsC; pfam03960 471855004057 putative ArsC-like catalytic residues; other site 471855004058 putative TRX-like catalytic residues [active] 471855004059 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 471855004060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004061 flavoprotein, HI0933 family; Region: TIGR00275 471855004062 NifU-like domain; Region: NifU; cl00484 471855004063 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 471855004064 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 471855004065 non-heme iron binding site [ion binding]; other site 471855004066 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 471855004067 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 471855004068 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 471855004069 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 471855004070 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 471855004071 hinge; other site 471855004072 active site 471855004073 ribosomal protein L20; Region: rpl20; CHL00068 471855004074 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 471855004075 23S rRNA binding site [nucleotide binding]; other site 471855004076 L21 binding site [polypeptide binding]; other site 471855004077 L13 binding site [polypeptide binding]; other site 471855004078 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 471855004079 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 471855004080 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 471855004081 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 471855004082 histidinol-phosphatase; Provisional; Region: PRK07328 471855004083 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 471855004084 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 471855004085 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 471855004086 substrate binding site [chemical binding]; other site 471855004087 glutamase interaction surface [polypeptide binding]; other site 471855004088 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 471855004089 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 471855004090 catalytic residues [active] 471855004091 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 471855004092 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 471855004093 putative active site [active] 471855004094 oxyanion strand; other site 471855004095 catalytic triad [active] 471855004096 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 471855004097 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 471855004098 putative active site pocket [active] 471855004099 4-fold oligomerization interface [polypeptide binding]; other site 471855004100 metal binding residues [ion binding]; metal-binding site 471855004101 3-fold/trimer interface [polypeptide binding]; other site 471855004102 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 471855004103 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 471855004104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855004105 homodimer interface [polypeptide binding]; other site 471855004106 catalytic residue [active] 471855004107 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 471855004108 histidinol dehydrogenase; Region: hisD; TIGR00069 471855004109 NAD binding site [chemical binding]; other site 471855004110 dimerization interface [polypeptide binding]; other site 471855004111 product binding site; other site 471855004112 substrate binding site [chemical binding]; other site 471855004113 zinc binding site [ion binding]; other site 471855004114 catalytic residues [active] 471855004115 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 471855004116 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 471855004117 dimer interface [polypeptide binding]; other site 471855004118 motif 1; other site 471855004119 active site 471855004120 motif 2; other site 471855004121 motif 3; other site 471855004122 ATP phosphoribosyltransferase; Region: HisG; cl15266 471855004123 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 471855004124 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 471855004125 substrate binding pocket [chemical binding]; other site 471855004126 membrane-bound complex binding site; other site 471855004127 hinge residues; other site 471855004128 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 471855004129 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 471855004130 active site 471855004131 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 471855004132 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 471855004133 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 471855004134 FeS/SAM binding site; other site 471855004135 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 471855004136 amidase catalytic site [active] 471855004137 Zn binding residues [ion binding]; other site 471855004138 substrate binding site [chemical binding]; other site 471855004139 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855004140 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 471855004141 baseplate wedge subunit and tail pin; Provisional; Region: 10; PHA02582 471855004142 Phage-related protein [Function unknown]; Region: COG5412 471855004143 Phage capsid family; Region: Phage_capsid; pfam05065 471855004144 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 471855004145 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 471855004146 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 471855004147 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 471855004148 HNH endonuclease; Region: HNH_3; pfam13392 471855004149 Helix-turn-helix domains; Region: HTH; cl00088 471855004150 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 471855004151 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 471855004152 DNA binding site [nucleotide binding] 471855004153 Int/Topo IB signature motif; other site 471855004154 active site 471855004155 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 471855004156 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 471855004157 non-specific DNA binding site [nucleotide binding]; other site 471855004158 salt bridge; other site 471855004159 sequence-specific DNA binding site [nucleotide binding]; other site 471855004160 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 471855004161 non-specific DNA binding site [nucleotide binding]; other site 471855004162 salt bridge; other site 471855004163 sequence-specific DNA binding site [nucleotide binding]; other site 471855004164 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 471855004165 Int/Topo IB signature motif; other site 471855004166 active site 471855004167 DNA binding site [nucleotide binding] 471855004168 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855004169 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 471855004170 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 471855004171 Major Facilitator Superfamily; Region: MFS_1; pfam07690 471855004172 putative substrate translocation pore; other site 471855004173 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 471855004174 non-specific DNA binding site [nucleotide binding]; other site 471855004175 salt bridge; other site 471855004176 sequence-specific DNA binding site [nucleotide binding]; other site 471855004177 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855004178 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855004179 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 471855004180 metal binding site [ion binding]; metal-binding site 471855004181 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 471855004182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004183 OpgC protein; Region: OpgC_C; cl00792 471855004184 Acyltransferase family; Region: Acyl_transf_3; pfam01757 471855004185 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 471855004186 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 471855004187 active site 471855004188 motif I; other site 471855004189 motif II; other site 471855004190 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855004191 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 471855004192 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004193 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 471855004194 aspartate kinase; Reviewed; Region: PRK09034 471855004195 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 471855004196 nucleotide binding site [chemical binding]; other site 471855004197 substrate binding site [chemical binding]; other site 471855004198 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 471855004199 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 471855004200 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 471855004201 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 471855004202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855004203 catalytic residue [active] 471855004204 homoserine kinase; Provisional; Region: PRK01212 471855004205 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 471855004206 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 471855004207 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 471855004208 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 471855004209 Walker A motif; other site 471855004210 ATP binding site [chemical binding]; other site 471855004211 Walker B motif; other site 471855004212 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 471855004213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 471855004214 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 471855004215 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855004216 FeoA domain; Region: FeoA; cl00838 471855004217 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 471855004218 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 471855004219 G1 box; other site 471855004220 GTP/Mg2+ binding site [chemical binding]; other site 471855004221 Switch I region; other site 471855004222 G2 box; other site 471855004223 G3 box; other site 471855004224 Switch II region; other site 471855004225 G4 box; other site 471855004226 G5 box; other site 471855004227 Nucleoside recognition; Region: Gate; cl00486 471855004228 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 471855004229 Nucleoside recognition; Region: Gate; cl00486 471855004230 Radical SAM superfamily; Region: Radical_SAM; pfam04055 471855004231 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 471855004232 FeS/SAM binding site; other site 471855004233 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 471855004234 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 471855004235 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 471855004236 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 471855004237 active site 471855004238 PSP1 C-terminal conserved region; Region: PSP1; cl00770 471855004239 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 471855004240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004241 thymidylate kinase; Validated; Region: tmk; PRK00698 471855004242 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 471855004243 TMP-binding site; other site 471855004244 ATP-binding site [chemical binding]; other site 471855004245 Fumarase C-terminus; Region: Fumerase_C; cl00795 471855004246 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 471855004247 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 471855004248 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 471855004249 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 471855004250 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 471855004251 elongation factor G; Reviewed; Region: PRK00007 471855004252 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 471855004253 G1 box; other site 471855004254 putative GEF interaction site [polypeptide binding]; other site 471855004255 GTP/Mg2+ binding site [chemical binding]; other site 471855004256 Switch I region; other site 471855004257 G2 box; other site 471855004258 G3 box; other site 471855004259 Switch II region; other site 471855004260 G4 box; other site 471855004261 G5 box; other site 471855004262 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 471855004263 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 471855004264 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 471855004265 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 471855004266 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 471855004267 S17 interaction site [polypeptide binding]; other site 471855004268 S8 interaction site; other site 471855004269 16S rRNA interaction site [nucleotide binding]; other site 471855004270 streptomycin interaction site [chemical binding]; other site 471855004271 23S rRNA interaction site [nucleotide binding]; other site 471855004272 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 471855004273 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 471855004274 Ligand Binding Site [chemical binding]; other site 471855004275 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 471855004276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004277 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 471855004278 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 471855004279 DHHA2 domain; Region: DHHA2; pfam02833 471855004280 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 471855004281 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 471855004282 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 471855004283 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 471855004284 CAAX protease self-immunity; Region: Abi; cl00558 471855004285 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 471855004286 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004287 Family description; Region: UvrD_C_2; cl15862 471855004288 Bacitracin resistance protein BacA; Region: BacA; cl00858 471855004289 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 471855004290 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 471855004291 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 471855004292 active site 471855004293 dimer interface [polypeptide binding]; other site 471855004294 motif 1; other site 471855004295 motif 2; other site 471855004296 motif 3; other site 471855004297 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 471855004298 anticodon binding site; other site 471855004299 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 471855004300 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 471855004301 AAA domain; Region: AAA_28; pfam13521 471855004302 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855004303 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855004304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004305 Walker A/P-loop; other site 471855004306 ATP binding site [chemical binding]; other site 471855004307 Q-loop/lid; other site 471855004308 ABC transporter signature motif; other site 471855004309 Walker B; other site 471855004310 D-loop; other site 471855004311 H-loop/switch region; other site 471855004312 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855004313 Double zinc ribbon; Region: DZR; pfam12773 471855004314 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855004315 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 471855004316 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 471855004317 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 471855004318 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855004319 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855004320 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 471855004321 Walker A/P-loop; other site 471855004322 ATP binding site [chemical binding]; other site 471855004323 Q-loop/lid; other site 471855004324 ABC transporter signature motif; other site 471855004325 Walker B; other site 471855004326 D-loop; other site 471855004327 H-loop/switch region; other site 471855004328 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 471855004329 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 471855004330 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 471855004331 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 471855004332 G1 box; other site 471855004333 GTP/Mg2+ binding site [chemical binding]; other site 471855004334 Switch I region; other site 471855004335 G2 box; other site 471855004336 Switch II region; other site 471855004337 G3 box; other site 471855004338 G4 box; other site 471855004339 G5 box; other site 471855004340 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 471855004341 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 471855004342 FeS/SAM binding site; other site 471855004343 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 471855004344 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 471855004345 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 471855004346 FeS/SAM binding site; other site 471855004347 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 471855004348 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 471855004349 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 471855004350 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 471855004351 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 471855004352 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 471855004353 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 471855004354 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 471855004355 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 471855004356 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 471855004357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004359 NAD(P) binding pocket [chemical binding]; other site 471855004360 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 471855004361 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 471855004362 non-specific DNA binding site [nucleotide binding]; other site 471855004363 salt bridge; other site 471855004364 sequence-specific DNA binding site [nucleotide binding]; other site 471855004365 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 471855004366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855004367 homodimer interface [polypeptide binding]; other site 471855004368 catalytic residue [active] 471855004369 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 471855004370 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 471855004371 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 471855004372 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 471855004373 active site residue [active] 471855004374 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 471855004375 active site residue [active] 471855004376 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 471855004377 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 471855004378 active site 471855004379 catalytic tetrad [active] 471855004380 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 471855004381 putative acetyltransferase; Provisional; Region: PRK03624 471855004382 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 471855004383 Coenzyme A binding pocket [chemical binding]; other site 471855004384 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 471855004385 DNA binding residues [nucleotide binding] 471855004386 dimerization interface [polypeptide binding]; other site 471855004387 hypothetical protein; Validated; Region: PRK07121 471855004388 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 471855004389 dimerization interface [polypeptide binding]; other site 471855004390 putative DNA binding site [nucleotide binding]; other site 471855004391 putative Zn2+ binding site [ion binding]; other site 471855004392 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 471855004393 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 471855004394 homotrimer interaction site [polypeptide binding]; other site 471855004395 putative active site [active] 471855004396 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855004397 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 471855004398 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 471855004399 RNA binding surface [nucleotide binding]; other site 471855004400 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 471855004401 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 471855004402 LytTr DNA-binding domain; Region: LytTR; cl04498 471855004403 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 471855004404 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 471855004405 ATP Binding subdomain [chemical binding]; other site 471855004406 Ligand Binding sites [chemical binding]; other site 471855004407 Dimerization subdomain; other site 471855004408 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 471855004409 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 471855004410 FeS/SAM binding site; other site 471855004411 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 471855004412 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 471855004413 DNA binding residues [nucleotide binding] 471855004414 drug binding residues [chemical binding]; other site 471855004415 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 471855004416 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 471855004417 metal coordination site [ion binding]; other site 471855004418 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 471855004419 heme-binding residues [chemical binding]; other site 471855004420 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 471855004421 Moco binding site; other site 471855004422 metal coordination site [ion binding]; other site 471855004423 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 471855004424 Polysulphide reductase, NrfD; Region: NrfD; cl01295 471855004425 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855004426 4Fe-4S binding domain; Region: Fer4; cl02805 471855004427 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 471855004428 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855004429 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 471855004430 4Fe-4S binding domain; Region: Fer4_5; pfam12801 471855004431 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 471855004432 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855004433 4Fe-4S binding domain; Region: Fer4; cl02805 471855004434 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 471855004435 molybdopterin cofactor binding site; other site 471855004436 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 471855004437 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 471855004438 putative molybdopterin cofactor binding site; other site 471855004439 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855004440 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 471855004441 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 471855004442 4Fe-4S binding domain; Region: Fer4; cl02805 471855004443 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 471855004444 Helix-turn-helix domains; Region: HTH; cl00088 471855004445 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 471855004446 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 471855004447 4Fe-4S binding domain; Region: Fer4; cl02805 471855004448 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 471855004449 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 471855004450 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 471855004451 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 471855004452 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 471855004453 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 471855004454 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855004455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 471855004456 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 471855004457 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855004458 Leucine carboxyl methyltransferase; Region: LCM; cl01306 471855004459 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 471855004460 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 471855004461 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 471855004462 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 471855004463 active site 471855004464 homodimer interface [polypeptide binding]; other site 471855004465 catalytic site [active] 471855004466 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 471855004467 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 471855004468 active site pocket [active] 471855004469 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 471855004470 glycogen synthase; Provisional; Region: glgA; PRK00654 471855004471 ADP-binding pocket [chemical binding]; other site 471855004472 homodimer interface [polypeptide binding]; other site 471855004473 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 471855004474 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 471855004475 active site 471855004476 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 471855004477 dimer interface [polypeptide binding]; other site 471855004478 N-terminal domain interface [polypeptide binding]; other site 471855004479 sulfate 1 binding site; other site 471855004480 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 471855004481 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 471855004482 ligand binding site; other site 471855004483 oligomer interface; other site 471855004484 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 471855004485 dimer interface [polypeptide binding]; other site 471855004486 N-terminal domain interface [polypeptide binding]; other site 471855004487 sulfate 1 binding site; other site 471855004488 glycogen branching enzyme; Provisional; Region: PRK12313 471855004489 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 471855004490 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 471855004491 active site 471855004492 catalytic site [active] 471855004493 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 471855004494 TIGR04076 family protein; Region: TIGR04076 471855004495 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 471855004496 DNA binding residues [nucleotide binding] 471855004497 dimerization interface [polypeptide binding]; other site 471855004498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004499 4Fe-4S binding domain; Region: Fer4; cl02805 471855004500 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 471855004501 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 471855004502 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 471855004503 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 471855004504 AMP-binding domain protein; Validated; Region: PRK08315 471855004505 AMP-binding enzyme; Region: AMP-binding; cl15778 471855004506 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855004507 2-isopropylmalate synthase; Validated; Region: PRK00915 471855004508 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 471855004509 active site 471855004510 catalytic residues [active] 471855004511 metal binding site [ion binding]; metal-binding site 471855004512 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 471855004513 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 471855004514 Phosphopantetheine attachment site; Region: PP-binding; cl09936 471855004515 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 471855004516 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 471855004517 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 471855004518 catalytic residue [active] 471855004519 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 471855004520 AMP-binding enzyme; Region: AMP-binding; cl15778 471855004521 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 471855004522 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 471855004523 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 471855004524 Domain of unknown function (DUF697); Region: DUF697; cl12064 471855004525 Chlorosome envelope protein C; Region: Chlorosome_CsmC; pfam11098 471855004526 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 471855004527 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 471855004528 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 471855004529 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 471855004530 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 471855004531 active site 471855004532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004533 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 471855004534 nudix motif; other site 471855004535 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 471855004536 S-adenosylmethionine binding site [chemical binding]; other site 471855004537 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 471855004538 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 471855004539 AMP-binding enzyme; Region: AMP-binding; cl15778 471855004540 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855004541 Cupin domain; Region: Cupin_2; cl09118 471855004542 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 471855004543 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 471855004544 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 471855004545 DNA binding residues [nucleotide binding] 471855004546 von Willebrand factor; Region: vWF_A; pfam12450 471855004547 VWA subgroup: 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...; Region: vWA_subgroup; cd01465 471855004548 metal ion-dependent adhesion site (MIDAS); other site 471855004549 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 471855004550 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 471855004551 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 471855004552 FeS/SAM binding site; other site 471855004553 hypothetical protein; Provisional; Region: PRK03881 471855004554 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 471855004555 AMMECR1; Region: AMMECR1; cl00911 471855004556 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 471855004557 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 471855004558 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 471855004559 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 471855004560 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 471855004561 stage V sporulation protein K; Region: spore_V_K; TIGR02881 471855004562 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 471855004563 Walker A motif; other site 471855004564 ATP binding site [chemical binding]; other site 471855004565 Walker B motif; other site 471855004566 arginine finger; other site 471855004567 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 471855004568 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 471855004569 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 471855004570 4Fe-4S binding domain; Region: Fer4; cl02805 471855004571 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 471855004572 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 471855004573 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 471855004574 substrate binding site [chemical binding]; other site 471855004575 ATP binding site [chemical binding]; other site 471855004576 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 471855004577 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 471855004578 active site 471855004579 putative substrate binding pocket [chemical binding]; other site 471855004580 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 471855004581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004582 oligomerization interface [polypeptide binding]; other site 471855004583 active site 471855004584 NAD+ binding site [chemical binding]; other site 471855004585 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 471855004586 Helix-turn-helix domains; Region: HTH; cl00088 471855004587 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 471855004588 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 471855004589 non-specific DNA binding site [nucleotide binding]; other site 471855004590 salt bridge; other site 471855004591 sequence-specific DNA binding site [nucleotide binding]; other site 471855004592 Cupin domain; Region: Cupin_2; cl09118 471855004593 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 471855004594 AMP-binding enzyme; Region: AMP-binding; cl15778 471855004595 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855004596 ParA-like protein; Provisional; Region: PHA02518 471855004597 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004598 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 471855004599 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 471855004600 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 471855004601 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 471855004602 dimer interface [polypeptide binding]; other site 471855004603 PYR/PP interface [polypeptide binding]; other site 471855004604 TPP binding site [chemical binding]; other site 471855004605 substrate binding site [chemical binding]; other site 471855004606 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 471855004607 TPP-binding site [chemical binding]; other site 471855004608 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 471855004609 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 471855004610 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 471855004611 HsdM N-terminal domain; Region: HsdM_N; pfam12161 471855004612 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 471855004613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004614 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 471855004615 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 471855004616 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 471855004617 ATP binding site [chemical binding]; other site 471855004618 putative Mg++ binding site [ion binding]; other site 471855004619 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 471855004620 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 471855004621 Fibronectin type III-like domain; Region: Fn3-like; cl15273 471855004622 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 471855004623 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855004624 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 471855004625 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 471855004626 G1 box; other site 471855004627 GTP/Mg2+ binding site [chemical binding]; other site 471855004628 Switch I region; other site 471855004629 G2 box; other site 471855004630 G3 box; other site 471855004631 Switch II region; other site 471855004632 G4 box; other site 471855004633 G5 box; other site 471855004634 Nucleoside recognition; Region: Gate; cl00486 471855004635 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 471855004636 Nucleoside recognition; Region: Gate; cl00486 471855004637 FeoA domain; Region: FeoA; cl00838 471855004638 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 471855004639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 471855004640 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 471855004641 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 471855004642 Cysteine-rich domain; Region: CCG; pfam02754 471855004643 Cysteine-rich domain; Region: CCG; pfam02754 471855004644 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 471855004645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004646 4Fe-4S binding domain; Region: Fer4; cl02805 471855004647 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 471855004648 acetyl-CoA decarbonylase/synthase complex subunit alpha; Validated; Region: PRK00941 471855004649 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 471855004650 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 471855004651 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 471855004652 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 471855004653 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 471855004654 FAD binding pocket [chemical binding]; other site 471855004655 FAD binding motif [chemical binding]; other site 471855004656 phosphate binding motif [ion binding]; other site 471855004657 beta-alpha-beta structure motif; other site 471855004658 NAD binding pocket [chemical binding]; other site 471855004659 Iron coordination center [ion binding]; other site 471855004660 glycolate transporter; Provisional; Region: PRK09695 471855004661 L-lactate permease; Region: Lactate_perm; cl00701 471855004662 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 471855004663 DNA binding site [nucleotide binding] 471855004664 active site 471855004665 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 471855004666 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 471855004667 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 471855004668 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 471855004669 active site 471855004670 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 471855004671 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 471855004672 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 471855004673 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 471855004674 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 471855004675 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 471855004676 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855004677 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855004678 4Fe-4S binding domain; Region: Fer4; cl02805 471855004679 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 471855004680 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 471855004681 molybdopterin cofactor binding site; other site 471855004682 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 471855004683 molybdopterin cofactor binding site; other site 471855004684 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 471855004685 DNA binding residues [nucleotide binding] 471855004686 dimerization interface [polypeptide binding]; other site 471855004687 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 471855004688 EamA-like transporter family; Region: EamA; cl01037 471855004689 EamA-like transporter family; Region: EamA; cl01037 471855004690 Leucine carboxyl methyltransferase; Region: LCM; cl01306 471855004691 radical SAM enzyme, rSAM/lipoprotein system; Region: rSAM_w_lipo; TIGR04133 471855004692 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 471855004693 FeS/SAM binding site; other site 471855004694 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 471855004695 Helix-turn-helix domains; Region: HTH; cl00088 471855004696 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 471855004697 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 471855004698 Phosphate transporter family; Region: PHO4; cl00396 471855004699 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 471855004700 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 471855004701 active site 471855004702 phosphorylation site [posttranslational modification] 471855004703 intermolecular recognition site; other site 471855004704 dimerization interface [polypeptide binding]; other site 471855004705 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 471855004706 DNA binding site [nucleotide binding] 471855004707 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 471855004708 dimer interface [polypeptide binding]; other site 471855004709 phosphorylation site [posttranslational modification] 471855004710 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 471855004711 ATP binding site [chemical binding]; other site 471855004712 Mg2+ binding site [ion binding]; other site 471855004713 G-X-G motif; other site 471855004714 Predicted membrane protein [Function unknown]; Region: COG2860 471855004715 UPF0126 domain; Region: UPF0126; pfam03458 471855004716 UPF0126 domain; Region: UPF0126; pfam03458 471855004717 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 471855004718 MatE; Region: MatE; cl10513 471855004719 MatE; Region: MatE; cl10513 471855004720 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855004721 Helix-turn-helix domains; Region: HTH; cl00088 471855004722 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 471855004723 dimerization interface [polypeptide binding]; other site 471855004724 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 471855004725 Cyclophilin-like; Region: Cyclophil_like; cl00950 471855004726 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855004727 Cyclophilin-like; Region: Cyclophil_like; cl00950 471855004728 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 471855004729 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 471855004730 active site 471855004731 catalytic tetrad [active] 471855004732 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855004733 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 471855004734 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 471855004735 DNA binding residues [nucleotide binding] 471855004736 putative dimer interface [polypeptide binding]; other site 471855004737 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855004738 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 471855004739 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 471855004740 active site 471855004741 catalytic tetrad [active] 471855004742 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855004743 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 471855004744 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 471855004745 intersubunit interface [polypeptide binding]; other site 471855004746 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 471855004747 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 471855004748 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 471855004749 ABC-ATPase subunit interface; other site 471855004750 dimer interface [polypeptide binding]; other site 471855004751 putative PBP binding regions; other site 471855004752 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 471855004753 binding surface 471855004754 TPR motif; other site 471855004755 Tetratricopeptide repeat; Region: TPR_12; pfam13424 471855004756 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 471855004757 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 471855004758 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 471855004759 FeS/SAM binding site; other site 471855004760 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 471855004761 ATP cone domain; Region: ATP-cone; pfam03477 471855004762 Class III ribonucleotide reductase; Region: RNR_III; cd01675 471855004763 effector binding site; other site 471855004764 active site 471855004765 Zn binding site [ion binding]; other site 471855004766 glycine loop; other site 471855004767 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 471855004768 catalytic residues [active] 471855004769 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 471855004770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004771 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 471855004772 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 471855004773 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 471855004774 putative FMN binding site [chemical binding]; other site 471855004775 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 471855004776 Helix-turn-helix domains; Region: HTH; cl00088 471855004777 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855004778 Helix-turn-helix domains; Region: HTH; cl00088 471855004779 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 471855004780 dimerization interface [polypeptide binding]; other site 471855004781 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 471855004782 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 471855004783 FeS/SAM binding site; other site 471855004784 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 471855004785 Quinone oxidoreductase (QOR); Region: quinone_oxidoreductase_like_1; cd08243 471855004786 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 471855004787 putative NAD(P) binding site [chemical binding]; other site 471855004788 4Fe-4S binding domain; Region: Fer4; cl02805 471855004789 Ferredoxin [Energy production and conversion]; Region: COG1146 471855004790 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 471855004791 FMN binding site [chemical binding]; other site 471855004792 dimer interface [polypeptide binding]; other site 471855004793 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 471855004794 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 471855004795 putative NAD(P) binding site [chemical binding]; other site 471855004796 Predicted transcriptional regulator [Transcription]; Region: COG1959 471855004797 Helix-turn-helix domains; Region: HTH; cl00088 471855004798 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 471855004799 non-specific DNA binding site [nucleotide binding]; other site 471855004800 salt bridge; other site 471855004801 sequence-specific DNA binding site [nucleotide binding]; other site 471855004802 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 471855004803 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855004804 Helix-turn-helix domains; Region: HTH; cl00088 471855004805 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 471855004806 short chain dehydrogenase; Provisional; Region: PRK06940 471855004807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004808 NAD(P) binding site [chemical binding]; other site 471855004809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004810 NAD(P) binding site [chemical binding]; other site 471855004811 active site 471855004812 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 471855004813 Cupin domain; Region: Cupin_2; cl09118 471855004814 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 471855004815 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 471855004816 DNA-binding site [nucleotide binding]; DNA binding site 471855004817 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 471855004818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855004819 homodimer interface [polypeptide binding]; other site 471855004820 catalytic residue [active] 471855004821 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 471855004822 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 471855004823 putative [4Fe-4S] binding site [ion binding]; other site 471855004824 putative molybdopterin cofactor binding site [chemical binding]; other site 471855004825 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 471855004826 molybdopterin cofactor binding site; other site 471855004827 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 471855004828 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855004829 ykkC-yxkD leader 471855004830 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 471855004831 MatE; Region: MatE; cl10513 471855004832 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 471855004833 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 471855004834 DNA binding residues [nucleotide binding] 471855004835 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 471855004836 magnesium chelatase subunit H; Provisional; Region: PRK12493 471855004837 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 471855004838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004839 NAD(P) binding site [chemical binding]; other site 471855004840 active site 471855004841 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855004842 Helix-turn-helix domains; Region: HTH; cl00088 471855004843 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 471855004844 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 471855004845 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 471855004846 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 471855004847 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 471855004848 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855004849 YibE/F-like protein; Region: YibE_F; cl02259 471855004850 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 471855004851 CotH protein; Region: CotH; pfam08757 471855004852 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 471855004853 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 471855004854 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004855 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 471855004856 Domain of unknown function (DUF4417); Region: DUF4417; pfam14386 471855004857 A nuclease of the HNH/ENDO VII superfamily with conserved LHH; Region: LHH; pfam14411 471855004858 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 471855004859 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 471855004860 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 471855004861 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 471855004862 DNA binding residues [nucleotide binding] 471855004863 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 471855004864 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 471855004865 Walker A/P-loop; other site 471855004866 ATP binding site [chemical binding]; other site 471855004867 Q-loop/lid; other site 471855004868 ABC transporter signature motif; other site 471855004869 Walker B; other site 471855004870 D-loop; other site 471855004871 H-loop/switch region; other site 471855004872 UbiA prenyltransferase family; Region: UbiA; cl00337 471855004873 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 471855004874 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 471855004875 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 471855004876 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 471855004877 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 471855004878 Helix-turn-helix domains; Region: HTH; cl00088 471855004879 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 471855004880 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 471855004881 Walker A motif; other site 471855004882 ATP binding site [chemical binding]; other site 471855004883 Walker B motif; other site 471855004884 arginine finger; other site 471855004885 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 471855004886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004887 Walker A motif; other site 471855004888 ATP binding site [chemical binding]; other site 471855004889 Walker B motif; other site 471855004890 PrgI family protein; Region: PrgI; pfam12666 471855004891 AAA-like domain; Region: AAA_10; pfam12846 471855004892 Domain of unknown function DUF87; Region: DUF87; pfam01935 471855004893 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 471855004894 NlpC/P60 family; Region: NLPC_P60; cl11438 471855004895 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 471855004896 NlpC/P60 family; Region: NLPC_P60; cl11438 471855004897 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 471855004898 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 471855004899 Abortive infection C-terminus; Region: Abi_C; pfam14355 471855004900 rod-share determining protein MreBH; Provisional; Region: PRK13929 471855004901 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 471855004902 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 471855004903 HsdM N-terminal domain; Region: HsdM_N; pfam12161 471855004904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855004905 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 471855004906 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 471855004907 Protein of unknown function DUF262; Region: DUF262; cl14890 471855004908 Protein of unknown function DUF262; Region: DUF262; cl14890 471855004909 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 471855004910 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 471855004911 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 471855004912 ATP binding site [chemical binding]; other site 471855004913 putative Mg++ binding site [ion binding]; other site 471855004914 Restriction endonuclease; Region: Mrr_cat; cl00516 471855004915 integrase; Provisional; Region: int; PHA02601 471855004916 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 471855004917 Int/Topo IB signature motif; other site 471855004918 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 471855004919 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 471855004920 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 471855004921 non-specific DNA binding site [nucleotide binding]; other site 471855004922 salt bridge; other site 471855004923 sequence-specific DNA binding site [nucleotide binding]; other site 471855004924 GMP synthase; Reviewed; Region: guaA; PRK00074 471855004925 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 471855004926 AMP/PPi binding site [chemical binding]; other site 471855004927 candidate oxyanion hole; other site 471855004928 catalytic triad [active] 471855004929 potential glutamine specificity residues [chemical binding]; other site 471855004930 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 471855004931 ATP Binding subdomain [chemical binding]; other site 471855004932 Ligand Binding sites [chemical binding]; other site 471855004933 Dimerization subdomain; other site 471855004934 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 471855004935 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 471855004936 Peptidase C26; Region: Peptidase_C26; pfam07722 471855004937 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 471855004938 catalytic triad [active] 471855004939 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 471855004940 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 471855004941 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 471855004942 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 471855004943 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 471855004944 active site 471855004945 phosphorylation site [posttranslational modification] 471855004946 intermolecular recognition site; other site 471855004947 dimerization interface [polypeptide binding]; other site 471855004948 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 471855004949 DNA binding residues [nucleotide binding] 471855004950 dimerization interface [polypeptide binding]; other site 471855004951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 471855004952 Cation efflux family; Region: Cation_efflux; cl00316 471855004953 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 471855004954 metal binding site 2 [ion binding]; metal-binding site 471855004955 putative DNA binding helix; other site 471855004956 metal binding site 1 [ion binding]; metal-binding site 471855004957 dimer interface [polypeptide binding]; other site 471855004958 structural Zn2+ binding site [ion binding]; other site 471855004959 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 471855004960 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 471855004961 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 471855004962 putative catalytic cysteine [active] 471855004963 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 471855004964 putative active site [active] 471855004965 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 471855004966 Helix-turn-helix domains; Region: HTH; cl00088 471855004967 Transcriptional regulators [Transcription]; Region: MarR; COG1846 471855004968 Helix-turn-helix domains; Region: HTH; cl00088 471855004969 Helix-turn-helix domains; Region: HTH; cl00088 471855004970 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004971 Walker A/P-loop; other site 471855004972 ATP binding site [chemical binding]; other site 471855004973 Q-loop/lid; other site 471855004974 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004975 ABC transporter signature motif; other site 471855004976 Walker B; other site 471855004977 D-loop; other site 471855004978 H-loop/switch region; other site 471855004979 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855004980 AAA domain; Region: AAA_21; pfam13304 471855004981 Walker A/P-loop; other site 471855004982 ATP binding site [chemical binding]; other site 471855004983 Q-loop/lid; other site 471855004984 ABC transporter signature motif; other site 471855004985 Walker B; other site 471855004986 D-loop; other site 471855004987 H-loop/switch region; other site 471855004988 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 471855004989 active site residue [active] 471855004990 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 471855004991 active site 471855004992 metal binding site [ion binding]; metal-binding site 471855004993 homotetramer interface [polypeptide binding]; other site 471855004994 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 471855004995 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 471855004996 YacP-like NYN domain; Region: NYN_YacP; cl01491 471855004997 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 471855004998 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 471855004999 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 471855005000 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 471855005001 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 471855005002 active site 471855005003 HIGH motif; other site 471855005004 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 471855005005 KMSKS motif; other site 471855005006 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 471855005007 tRNA binding surface [nucleotide binding]; other site 471855005008 anticodon binding site; other site 471855005009 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 471855005010 homotrimer interaction site [polypeptide binding]; other site 471855005011 zinc binding site [ion binding]; other site 471855005012 CDP-binding sites; other site 471855005013 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 471855005014 substrate binding site; other site 471855005015 dimer interface; other site 471855005016 Clp protease ATP binding subunit; Region: clpC; CHL00095 471855005017 Clp amino terminal domain; Region: Clp_N; pfam02861 471855005018 Clp amino terminal domain; Region: Clp_N; pfam02861 471855005019 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 471855005020 Walker A motif; other site 471855005021 ATP binding site [chemical binding]; other site 471855005022 Walker B motif; other site 471855005023 arginine finger; other site 471855005024 UvrB/uvrC motif; Region: UVR; pfam02151 471855005025 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 471855005026 Walker A motif; other site 471855005027 ATP binding site [chemical binding]; other site 471855005028 Walker B motif; other site 471855005029 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 471855005030 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 471855005031 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 471855005032 dimer interface [polypeptide binding]; other site 471855005033 putative anticodon binding site; other site 471855005034 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 471855005035 motif 1; other site 471855005036 active site 471855005037 motif 2; other site 471855005038 motif 3; other site 471855005039 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 471855005040 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 471855005041 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 471855005042 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 471855005043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 471855005044 NlpC/P60 family; Region: NLPC_P60; cl11438 471855005045 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 471855005046 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 471855005047 B12 binding site [chemical binding]; other site 471855005048 cobalt ligand [ion binding]; other site 471855005049 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 471855005050 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 471855005051 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 471855005052 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 471855005053 NMT1-like family; Region: NMT1_2; cl15260 471855005054 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 471855005055 dimer interface [polypeptide binding]; other site 471855005056 conserved gate region; other site 471855005057 ABC-ATPase subunit interface; other site 471855005058 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 471855005059 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 471855005060 Walker A/P-loop; other site 471855005061 ATP binding site [chemical binding]; other site 471855005062 Q-loop/lid; other site 471855005063 ABC transporter signature motif; other site 471855005064 Walker B; other site 471855005065 D-loop; other site 471855005066 H-loop/switch region; other site 471855005067 NIL domain; Region: NIL; cl09633 471855005068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 471855005069 NlpC/P60 family; Region: NLPC_P60; cl11438 471855005070 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 471855005071 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 471855005072 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 471855005073 substrate binding pocket [chemical binding]; other site 471855005074 chain length determination region; other site 471855005075 substrate-Mg2+ binding site; other site 471855005076 catalytic residues [active] 471855005077 aspartate-rich region 1; other site 471855005078 active site lid residues [active] 471855005079 aspartate-rich region 2; other site 471855005080 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 471855005081 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 471855005082 enolase; Provisional; Region: eno; PRK00077 471855005083 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 471855005084 dimer interface [polypeptide binding]; other site 471855005085 metal binding site [ion binding]; metal-binding site 471855005086 substrate binding pocket [chemical binding]; other site 471855005087 Cobalt transport protein; Region: CbiQ; cl00463 471855005088 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 471855005089 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 471855005090 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 471855005091 alphaNTD - beta interaction site [polypeptide binding]; other site 471855005092 alphaNTD homodimer interface [polypeptide binding]; other site 471855005093 alphaNTD - beta' interaction site [polypeptide binding]; other site 471855005094 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 471855005095 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 471855005096 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 471855005097 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 471855005098 RNA binding surface [nucleotide binding]; other site 471855005099 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 471855005100 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 471855005101 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 471855005102 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 471855005103 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 471855005104 rRNA binding site [nucleotide binding]; other site 471855005105 predicted 30S ribosome binding site; other site 471855005106 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 471855005107 Ligand Binding Site [chemical binding]; other site 471855005108 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 471855005109 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 471855005110 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 471855005111 catalytic residue [active] 471855005112 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 471855005113 NAD synthase; Region: NAD_synthase; pfam02540 471855005114 homodimer interface [polypeptide binding]; other site 471855005115 NAD binding pocket [chemical binding]; other site 471855005116 ATP binding pocket [chemical binding]; other site 471855005117 Mg binding site [ion binding]; other site 471855005118 active-site loop [active] 471855005119 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005120 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 471855005121 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 471855005122 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 471855005123 FeoA domain; Region: FeoA; cl00838 471855005124 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 471855005125 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 471855005126 putative NADH binding site [chemical binding]; other site 471855005127 putative active site [active] 471855005128 nudix motif; other site 471855005129 putative metal binding site [ion binding]; other site 471855005130 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 471855005131 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 471855005132 DNA binding site [nucleotide binding] 471855005133 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 471855005134 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 471855005135 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 471855005136 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 471855005137 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 471855005138 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 471855005139 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional; Region: PRK14906 471855005140 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 471855005141 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 471855005142 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 471855005143 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 471855005144 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 471855005145 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 471855005146 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 471855005147 DNA binding site [nucleotide binding] 471855005148 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 471855005149 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 471855005150 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 471855005151 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 471855005152 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 471855005153 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 471855005154 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 471855005155 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 471855005156 RPB1 interaction site [polypeptide binding]; other site 471855005157 RPB10 interaction site [polypeptide binding]; other site 471855005158 RPB11 interaction site [polypeptide binding]; other site 471855005159 RPB3 interaction site [polypeptide binding]; other site 471855005160 RPB12 interaction site [polypeptide binding]; other site 471855005161 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 471855005162 EamA-like transporter family; Region: EamA; cl01037 471855005163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855005164 Helix-turn-helix domains; Region: HTH; cl00088 471855005165 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 471855005166 dimerization interface [polypeptide binding]; other site 471855005167 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 471855005168 putative dimer interface [polypeptide binding]; other site 471855005169 excinuclease ABC subunit B; Provisional; Region: PRK05298 471855005170 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 471855005171 ATP binding site [chemical binding]; other site 471855005172 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 471855005173 nucleotide binding region [chemical binding]; other site 471855005174 ATP-binding site [chemical binding]; other site 471855005175 Ultra-violet resistance protein B; Region: UvrB; pfam12344 471855005176 UvrB/uvrC motif; Region: UVR; pfam02151 471855005177 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 471855005178 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 471855005179 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 471855005180 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 471855005181 CoA-binding site [chemical binding]; other site 471855005182 ATP-binding [chemical binding]; other site 471855005183 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 471855005184 RNA binding site [nucleotide binding]; other site 471855005185 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 471855005186 RNA binding site [nucleotide binding]; other site 471855005187 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 471855005188 RNA binding site [nucleotide binding]; other site 471855005189 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 471855005190 RNA binding site [nucleotide binding]; other site 471855005191 Mechanosensitive ion channel; Region: MS_channel; pfam00924 471855005192 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 471855005193 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 471855005194 Thymidylate synthase complementing protein; Region: Thy1; cl03630 471855005195 Helix-turn-helix domains; Region: HTH; cl00088 471855005196 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 471855005197 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 471855005198 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 471855005199 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 471855005200 G1 box; other site 471855005201 GTP/Mg2+ binding site [chemical binding]; other site 471855005202 Switch I region; other site 471855005203 G2 box; other site 471855005204 G3 box; other site 471855005205 Switch II region; other site 471855005206 G4 box; other site 471855005207 G5 box; other site 471855005208 Nucleoside recognition; Region: Gate; cl00486 471855005209 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 471855005210 Nucleoside recognition; Region: Gate; cl00486 471855005211 FeoA domain; Region: FeoA; cl00838 471855005212 FeoA domain; Region: FeoA; cl00838 471855005213 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 471855005214 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 471855005215 TadE-like protein; Region: TadE; cl10688 471855005216 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 471855005217 catalytic residues [active] 471855005218 catalytic nucleophile [active] 471855005219 Recombinase; Region: Recombinase; pfam07508 471855005220 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 471855005221 ssDNA binding site [nucleotide binding]; other site 471855005222 dimer interface [polypeptide binding]; other site 471855005223 tetramer (dimer of dimers) interface [polypeptide binding]; other site 471855005224 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 471855005225 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; cl02542 471855005226 Restriction endonuclease; Region: Mrr_cat; cl00516 471855005227 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 471855005228 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 471855005229 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 471855005230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855005231 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 471855005232 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 471855005233 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 471855005234 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 471855005235 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 471855005236 catalytic residues [active] 471855005237 catalytic nucleophile [active] 471855005238 Recombinase; Region: Recombinase; pfam07508 471855005239 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 471855005240 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 471855005241 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 471855005242 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 471855005243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855005244 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 471855005245 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 471855005246 catalytic residues [active] 471855005247 catalytic nucleophile [active] 471855005248 Presynaptic Site I dimer interface [polypeptide binding]; other site 471855005249 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 471855005250 Synaptic Flat tetramer interface [polypeptide binding]; other site 471855005251 Synaptic Site I dimer interface [polypeptide binding]; other site 471855005252 DNA binding site [nucleotide binding] 471855005253 Helix-turn-helix domains; Region: HTH; cl00088 471855005254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855005255 Antirestriction protein (ArdA); Region: ArdA; cl01953 471855005256 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 471855005257 putative active site [active] 471855005258 putative metal binding site [ion binding]; other site 471855005259 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 471855005260 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 471855005261 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 471855005262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005263 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 471855005264 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 471855005265 ssDNA binding site [nucleotide binding]; other site 471855005266 dimer interface [polypeptide binding]; other site 471855005267 tetramer (dimer of dimers) interface [polypeptide binding]; other site 471855005268 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 471855005269 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 471855005270 P-loop; other site 471855005271 Magnesium ion binding site [ion binding]; other site 471855005272 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 471855005273 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 471855005274 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 471855005275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005276 Walker A motif; other site 471855005277 AAA domain; Region: AAA_31; pfam13614 471855005278 SAF domain; Region: SAF; cl00555 471855005279 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 471855005280 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 471855005281 dimer interface [polypeptide binding]; other site 471855005282 anticodon binding site; other site 471855005283 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 471855005284 homodimer interface [polypeptide binding]; other site 471855005285 motif 1; other site 471855005286 active site 471855005287 motif 2; other site 471855005288 GAD domain; Region: GAD; pfam02938 471855005289 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 471855005290 active site 471855005291 motif 3; other site 471855005292 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 471855005293 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 471855005294 dimer interface [polypeptide binding]; other site 471855005295 motif 1; other site 471855005296 active site 471855005297 motif 2; other site 471855005298 motif 3; other site 471855005299 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 471855005300 anticodon binding site; other site 471855005301 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 471855005302 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 471855005303 Peptidase M16C associated; Region: M16C_assoc; pfam08367 471855005304 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 471855005305 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855005306 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 471855005307 Predicted ATPase [General function prediction only]; Region: COG3910 471855005308 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005309 Walker A/P-loop; other site 471855005310 ATP binding site [chemical binding]; other site 471855005311 Q-loop/lid; other site 471855005312 ABC transporter signature motif; other site 471855005313 Walker B; other site 471855005314 D-loop; other site 471855005315 H-loop/switch region; other site 471855005316 hypothetical protein; Provisional; Region: PRK13663 471855005317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 471855005318 Flavin Reductases; Region: FlaRed; cl00801 471855005319 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 471855005320 Cation efflux family; Region: Cation_efflux; cl00316 471855005321 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 471855005322 Helix-turn-helix domains; Region: HTH; cl00088 471855005323 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 471855005324 catalytic residues [active] 471855005325 dimer interface [polypeptide binding]; other site 471855005326 E3 Ubiquitin ligase; Region: GIDE; pfam12483 471855005327 phage shock protein A; Region: phageshock_pspA; TIGR02977 471855005328 Predicted membrane protein [Function unknown]; Region: COG2364 471855005329 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 471855005330 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 471855005331 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 471855005332 non-specific DNA binding site [nucleotide binding]; other site 471855005333 salt bridge; other site 471855005334 sequence-specific DNA binding site [nucleotide binding]; other site 471855005335 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 471855005336 DNA binding residues [nucleotide binding] 471855005337 dimerization interface [polypeptide binding]; other site 471855005338 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 471855005339 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 471855005340 molybdopterin cofactor binding site; other site 471855005341 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 471855005342 putative molybdopterin cofactor binding site; other site 471855005343 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855005344 4Fe-4S binding domain; Region: Fer4; cl02805 471855005345 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855005346 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 471855005347 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 471855005348 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 471855005349 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 471855005350 homodecamer interface [polypeptide binding]; other site 471855005351 GTP cyclohydrolase I; Provisional; Region: PLN03044 471855005352 active site 471855005353 putative catalytic site residues [active] 471855005354 zinc binding site [ion binding]; other site 471855005355 GTP-CH-I/GFRP interaction surface; other site 471855005356 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 471855005357 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 471855005358 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 471855005359 homodimer interface [polypeptide binding]; other site 471855005360 NADP binding site [chemical binding]; other site 471855005361 substrate binding site [chemical binding]; other site 471855005362 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 471855005363 phosphoglycolate phosphatase; Provisional; Region: PRK13222 471855005364 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 471855005365 motif II; other site 471855005366 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 471855005367 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 471855005368 Phospholipid methyltransferase; Region: PEMT; cl00763 471855005369 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 471855005370 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 471855005371 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 471855005372 Potassium binding sites [ion binding]; other site 471855005373 Cesium cation binding sites [ion binding]; other site 471855005374 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 471855005375 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 471855005376 CoenzymeA binding site [chemical binding]; other site 471855005377 subunit interaction site [polypeptide binding]; other site 471855005378 PHB binding site; other site 471855005379 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 471855005380 RHS Repeat; Region: RHS_repeat; cl11982 471855005381 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 471855005382 putative ADP-ribose binding site [chemical binding]; other site 471855005383 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; cd00296 471855005384 ApbE family; Region: ApbE; cl00643 471855005385 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 471855005386 GIY-YIG motif/motif A; other site 471855005387 putative active site [active] 471855005388 putative metal binding site [ion binding]; other site 471855005389 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 471855005390 catalytic core [active] 471855005391 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005392 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 471855005393 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005394 Walker A motif; other site 471855005395 ATP binding site [chemical binding]; other site 471855005396 Walker B motif; other site 471855005397 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 471855005398 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 471855005399 active site pocket [active] 471855005400 putative dimer interface [polypeptide binding]; other site 471855005401 putative cataytic base [active] 471855005402 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 471855005403 Precorrin-8X methylmutase; Region: CbiC; pfam02570 471855005404 cobyric acid synthase; Provisional; Region: PRK00784 471855005405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005406 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 471855005407 catalytic triad [active] 471855005408 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 471855005409 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 471855005410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855005411 homodimer interface [polypeptide binding]; other site 471855005412 catalytic residue [active] 471855005413 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 471855005414 Uncharacterized conserved protein [Function unknown]; Region: COG2014 471855005415 Domain of unknown function (DUF364); Region: DUF364; pfam04016 471855005416 CobD/Cbib protein; Region: CobD_Cbib; cl00561 471855005417 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 471855005418 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005419 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 471855005420 catalytic triad [active] 471855005421 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 471855005422 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 471855005423 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 471855005424 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 471855005425 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 471855005426 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 471855005427 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 471855005428 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 471855005429 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 471855005430 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 471855005431 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 471855005432 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 471855005433 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 471855005434 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 471855005435 Cysteine-rich small domain; Region: zf-like; cl00946 471855005436 CbiD; Region: CbiD; cl00828 471855005437 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 471855005438 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 471855005439 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cl02206 471855005440 ApbE family; Region: ApbE; cl00643 471855005441 FMN-binding domain; Region: FMN_bind; cl01081 471855005442 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 471855005443 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 471855005444 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 471855005445 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 471855005446 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 471855005447 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 471855005448 putative substrate translocation pore; other site 471855005449 Permease family; Region: Xan_ur_permease; pfam00860 471855005450 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 471855005451 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 471855005452 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 471855005453 dimerization interface 3.5A [polypeptide binding]; other site 471855005454 active site 471855005455 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 471855005456 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 471855005457 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 471855005458 generic binding surface II; other site 471855005459 generic binding surface I; other site 471855005460 hypothetical protein; Provisional; Region: PRK05590 471855005461 SEC-C motif; Region: SEC-C; pfam02810 471855005462 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 471855005463 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 471855005464 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 471855005465 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 471855005466 alpha subunit interaction interface [polypeptide binding]; other site 471855005467 Walker A motif; other site 471855005468 ATP binding site [chemical binding]; other site 471855005469 Walker B motif; other site 471855005470 inhibitor binding site; inhibition site 471855005471 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 471855005472 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 471855005473 ATP synthase; Region: ATP-synt; cl00365 471855005474 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 471855005475 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 471855005476 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 471855005477 beta subunit interaction interface [polypeptide binding]; other site 471855005478 Walker A motif; other site 471855005479 ATP binding site [chemical binding]; other site 471855005480 Walker B motif; other site 471855005481 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 471855005482 Plant ATP synthase F0; Region: YMF19; cl07975 471855005483 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 471855005484 Plant ATP synthase F0; Region: YMF19; cl07975 471855005485 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 471855005486 ATP synthase subunit C; Region: ATP-synt_C; cl00466 471855005487 ATP synthase A chain; Region: ATP-synt_A; cl00413 471855005488 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 471855005489 catalytic motif [active] 471855005490 Zn binding site [ion binding]; other site 471855005491 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 471855005492 homotrimer interaction site [polypeptide binding]; other site 471855005493 putative active site [active] 471855005494 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 471855005495 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 471855005496 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 471855005497 Uncharacterized membrane protein [Function unknown]; Region: COG3949 471855005498 Helix-turn-helix domains; Region: HTH; cl00088 471855005499 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 471855005500 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 471855005501 dimer interface [polypeptide binding]; other site 471855005502 glycine-pyridoxal phosphate binding site [chemical binding]; other site 471855005503 active site 471855005504 folate binding site [chemical binding]; other site 471855005505 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 471855005506 glycerol kinase; Provisional; Region: glpK; PRK00047 471855005507 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 471855005508 N- and C-terminal domain interface [polypeptide binding]; other site 471855005509 active site 471855005510 MgATP binding site [chemical binding]; other site 471855005511 catalytic site [active] 471855005512 metal binding site [ion binding]; metal-binding site 471855005513 glycerol binding site [chemical binding]; other site 471855005514 homotetramer interface [polypeptide binding]; other site 471855005515 homodimer interface [polypeptide binding]; other site 471855005516 FBP binding site [chemical binding]; other site 471855005517 protein IIAGlc interface [polypeptide binding]; other site 471855005518 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 471855005519 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 471855005520 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 471855005521 Predicted membrane protein [Function unknown]; Region: COG1971 471855005522 Domain of unknown function DUF; Region: DUF204; pfam02659 471855005523 endonuclease IV; Provisional; Region: PRK01060 471855005524 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 471855005525 AP (apurinic/apyrimidinic) site pocket; other site 471855005526 DNA interaction; other site 471855005527 Metal-binding active site; metal-binding site 471855005528 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 471855005529 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 471855005530 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 471855005531 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855005532 active site 471855005533 ATP binding site [chemical binding]; other site 471855005534 substrate binding site [chemical binding]; other site 471855005535 activation loop (A-loop); other site 471855005536 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855005537 active site 471855005538 ATP binding site [chemical binding]; other site 471855005539 substrate binding site [chemical binding]; other site 471855005540 activation loop (A-loop); other site 471855005541 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 471855005542 Helix-turn-helix domains; Region: HTH; cl00088 471855005543 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 471855005544 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 471855005545 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855005546 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 471855005547 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 471855005548 GatB domain; Region: GatB_Yqey; cl11497 471855005549 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 471855005550 Amidase; Region: Amidase; cl11426 471855005551 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 471855005552 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855005553 Helix-turn-helix domains; Region: HTH; cl00088 471855005554 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 471855005555 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 471855005556 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 471855005557 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 471855005558 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 471855005559 4Fe-4S binding domain; Region: Fer4; cl02805 471855005560 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 471855005561 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 471855005562 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 471855005563 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 471855005564 molybdopterin cofactor binding site; other site 471855005565 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 471855005566 GTP-binding protein YchF; Reviewed; Region: PRK09601 471855005567 YchF GTPase; Region: YchF; cd01900 471855005568 G1 box; other site 471855005569 GTP/Mg2+ binding site [chemical binding]; other site 471855005570 Switch I region; other site 471855005571 G2 box; other site 471855005572 Switch II region; other site 471855005573 G3 box; other site 471855005574 G4 box; other site 471855005575 G5 box; other site 471855005576 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 471855005577 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 471855005578 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855005579 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 471855005580 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 471855005581 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 471855005582 synthetase active site [active] 471855005583 NTP binding site [chemical binding]; other site 471855005584 metal binding site [ion binding]; metal-binding site 471855005585 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 471855005586 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 471855005587 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 471855005588 DHH family; Region: DHH; pfam01368 471855005589 DHHA1 domain; Region: DHHA1; pfam02272 471855005590 DEAD-like helicases superfamily; Region: DEXDc; smart00487 471855005591 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 471855005592 ATP binding site [chemical binding]; other site 471855005593 putative Mg++ binding site [ion binding]; other site 471855005594 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 471855005595 nucleotide binding region [chemical binding]; other site 471855005596 ATP-binding site [chemical binding]; other site 471855005597 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 471855005598 putative active site [active] 471855005599 catalytic residue [active] 471855005600 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 471855005601 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 471855005602 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 471855005603 active site 471855005604 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 471855005605 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 471855005606 Substrate binding site; other site 471855005607 Mg++ binding site; other site 471855005608 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 471855005609 active site 471855005610 substrate binding site [chemical binding]; other site 471855005611 CoA binding site [chemical binding]; other site 471855005612 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 471855005613 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 471855005614 active site 471855005615 substrate binding site [chemical binding]; other site 471855005616 metal binding site [ion binding]; metal-binding site 471855005617 Rhomboid family; Region: Rhomboid; cl11446 471855005618 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855005619 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 471855005620 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 471855005621 23S rRNA interface [nucleotide binding]; other site 471855005622 L3 interface [polypeptide binding]; other site 471855005623 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 471855005624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855005625 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 471855005626 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 471855005627 heterotetramer interface [polypeptide binding]; other site 471855005628 active site pocket [active] 471855005629 cleavage site 471855005630 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 471855005631 feedback inhibition sensing region; other site 471855005632 homohexameric interface [polypeptide binding]; other site 471855005633 nucleotide binding site [chemical binding]; other site 471855005634 N-acetyl-L-glutamate binding site [chemical binding]; other site 471855005635 acetylornithine aminotransferase; Provisional; Region: PRK02627 471855005636 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 471855005637 inhibitor-cofactor binding pocket; inhibition site 471855005638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855005639 catalytic residue [active] 471855005640 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 471855005641 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 471855005642 TM1410 hypothetical-related protein; Region: DUF297; cl00997 471855005643 CAAX protease self-immunity; Region: Abi; cl00558 471855005644 CAAX protease self-immunity; Region: Abi; cl00558 471855005645 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 471855005646 Isochorismatase family; Region: Isochorismatase; pfam00857 471855005647 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 471855005648 catalytic triad [active] 471855005649 conserved cis-peptide bond; other site 471855005650 DNA polymerase IV; Reviewed; Region: PRK03103 471855005651 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 471855005652 active site 471855005653 DNA binding site [nucleotide binding] 471855005654 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 471855005655 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 471855005656 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 471855005657 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 471855005658 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 471855005659 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 471855005660 DNA binding residues [nucleotide binding] 471855005661 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 471855005662 Sulfate transporter family; Region: Sulfate_transp; cl15842 471855005663 Sulfate transporter family; Region: Sulfate_transp; cl15842 471855005664 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 471855005665 Domain of unknown function DUF87; Region: DUF87; pfam01935 471855005666 Helix-turn-helix domains; Region: HTH; cl00088 471855005667 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 471855005668 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 471855005669 molybdopterin cofactor binding site; other site 471855005670 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 471855005671 molybdopterin cofactor binding site; other site 471855005672 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855005673 4Fe-4S binding domain; Region: Fer4; cl02805 471855005674 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 471855005675 Helix-turn-helix domains; Region: HTH; cl00088 471855005676 Helix-turn-helix domains; Region: HTH; cl00088 471855005677 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855005678 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 471855005679 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005680 Walker A/P-loop; other site 471855005681 ATP binding site [chemical binding]; other site 471855005682 Q-loop/lid; other site 471855005683 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 471855005684 ABC transporter; Region: ABC_tran_2; pfam12848 471855005685 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 471855005686 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 471855005687 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 471855005688 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 471855005689 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 471855005690 active site 471855005691 catalytic residues [active] 471855005692 metal binding site [ion binding]; metal-binding site 471855005693 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 471855005694 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 471855005695 transaminase; Validated; Region: PRK07324 471855005696 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 471855005697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855005698 homodimer interface [polypeptide binding]; other site 471855005699 catalytic residue [active] 471855005700 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 471855005701 Amidinotransferase; Region: Amidinotransf; cl12043 471855005702 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 471855005703 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 471855005704 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 471855005705 nudix motif; other site 471855005706 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 471855005707 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 471855005708 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 471855005709 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 471855005710 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 471855005711 Ligand Binding Site [chemical binding]; other site 471855005712 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 471855005713 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855005714 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 471855005715 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cd00037 471855005716 ligand binding surface [chemical binding]; other site 471855005717 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 471855005718 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855005719 Double zinc ribbon; Region: DZR; pfam12773 471855005720 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855005721 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855005722 YARHG domain; Region: YARHG; pfam13308 471855005723 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 471855005724 amidase catalytic site [active] 471855005725 Zn binding residues [ion binding]; other site 471855005726 substrate binding site [chemical binding]; other site 471855005727 Sel1 repeat; Region: Sel1; cl02723 471855005728 Sel1 repeat; Region: Sel1; cl02723 471855005729 WYL domain; Region: WYL; cl14852 471855005730 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 471855005731 AMP-binding enzyme; Region: AMP-binding; cl15778 471855005732 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 471855005733 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 471855005734 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855005735 Helix-turn-helix domains; Region: HTH; cl00088 471855005736 FMN-binding domain; Region: FMN_bind; cl01081 471855005737 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 471855005738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855005739 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 471855005740 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 471855005741 catalytic residues [active] 471855005742 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855005743 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 471855005744 serine O-acetyltransferase; Region: cysE; TIGR01172 471855005745 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 471855005746 trimer interface [polypeptide binding]; other site 471855005747 active site 471855005748 substrate binding site [chemical binding]; other site 471855005749 CoA binding site [chemical binding]; other site 471855005750 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 471855005751 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 471855005752 putative substrate translocation pore; other site 471855005753 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 471855005754 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 471855005755 dimer interface [polypeptide binding]; other site 471855005756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855005757 catalytic residue [active] 471855005758 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 471855005759 ferredoxin; Validated; Region: PRK07118 471855005760 4Fe-4S binding domain; Region: Fer4; cl02805 471855005761 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 471855005762 4Fe-4S binding domain; Region: Fer4; cl02805 471855005763 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 471855005764 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 471855005765 DNA binding residues [nucleotide binding] 471855005766 dimerization interface [polypeptide binding]; other site 471855005767 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 471855005768 molybdopterin cofactor binding site; other site 471855005769 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 471855005770 thiosulfate reductase PhsA; Provisional; Region: PRK15488 471855005771 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 471855005772 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 471855005773 putative molybdopterin cofactor binding site; other site 471855005774 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855005775 4Fe-4S binding domain; Region: Fer4; cl02805 471855005776 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 471855005777 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 471855005778 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 471855005779 4Fe-4S binding domain; Region: Fer4_5; pfam12801 471855005780 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 471855005781 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855005782 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 471855005783 Predicted deacylase [General function prediction only]; Region: COG3608 471855005784 active site 471855005785 Zn binding site [ion binding]; other site 471855005786 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 471855005787 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 471855005788 active site 471855005789 Zn binding site [ion binding]; other site 471855005790 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 471855005791 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 471855005792 potential frameshift: common BLAST hit: gi|213693059|ref|YP_002323645.1| protein of unknown function DUF404 471855005793 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 471855005794 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 471855005795 Membrane protein of unknown function; Region: DUF360; cl00850 471855005796 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 471855005797 Amidinotransferase; Region: Amidinotransf; cl12043 471855005798 helicase 45; Provisional; Region: PTZ00424 471855005799 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 471855005800 ATP binding site [chemical binding]; other site 471855005801 Mg++ binding site [ion binding]; other site 471855005802 motif III; other site 471855005803 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 471855005804 nucleotide binding region [chemical binding]; other site 471855005805 ATP-binding site [chemical binding]; other site 471855005806 LytTr DNA-binding domain; Region: LytTR; cl04498 471855005807 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 471855005808 active site 471855005809 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 471855005810 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 471855005811 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 471855005812 S-adenosylmethionine binding site [chemical binding]; other site 471855005813 Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: MetG; COG0143 471855005814 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 471855005815 active site 471855005816 nucleotide binding site [chemical binding]; other site 471855005817 HIGH motif; other site 471855005818 KMSKS motif; other site 471855005819 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 471855005820 tRNA binding surface [nucleotide binding]; other site 471855005821 anticodon binding site; other site 471855005822 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 471855005823 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 471855005824 tandem repeat interface [polypeptide binding]; other site 471855005825 oligomer interface [polypeptide binding]; other site 471855005826 active site residues [active] 471855005827 VanZ like family; Region: VanZ; cl01971 471855005828 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 471855005829 FMN binding site [chemical binding]; other site 471855005830 dimer interface [polypeptide binding]; other site 471855005831 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 471855005832 dimer interface [polypeptide binding]; other site 471855005833 phosphorylation site [posttranslational modification] 471855005834 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 471855005835 ATP binding site [chemical binding]; other site 471855005836 Mg2+ binding site [ion binding]; other site 471855005837 G-X-G motif; other site 471855005838 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 471855005839 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 471855005840 active site 471855005841 phosphorylation site [posttranslational modification] 471855005842 intermolecular recognition site; other site 471855005843 dimerization interface [polypeptide binding]; other site 471855005844 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 471855005845 DNA binding site [nucleotide binding] 471855005846 Protein of unknown function (DUF975); Region: DUF975; cl10504 471855005847 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 471855005848 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 471855005849 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 471855005850 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 471855005851 YCII-related domain; Region: YCII; cl00999 471855005852 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 471855005853 DNA binding residues [nucleotide binding] 471855005854 dimerization interface [polypeptide binding]; other site 471855005855 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 471855005856 Moco binding site; other site 471855005857 metal coordination site [ion binding]; other site 471855005858 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855005859 Helix-turn-helix domains; Region: HTH; cl00088 471855005860 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855005861 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855005862 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005863 Walker A/P-loop; other site 471855005864 ATP binding site [chemical binding]; other site 471855005865 Q-loop/lid; other site 471855005866 ABC transporter signature motif; other site 471855005867 Walker B; other site 471855005868 D-loop; other site 471855005869 H-loop/switch region; other site 471855005870 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855005871 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855005872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005873 Walker A/P-loop; other site 471855005874 ATP binding site [chemical binding]; other site 471855005875 Q-loop/lid; other site 471855005876 ABC transporter signature motif; other site 471855005877 Walker B; other site 471855005878 D-loop; other site 471855005879 H-loop/switch region; other site 471855005880 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 471855005881 Cobalt transport protein; Region: CbiQ; cl00463 471855005882 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 471855005883 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 471855005884 Walker A/P-loop; other site 471855005885 ATP binding site [chemical binding]; other site 471855005886 Q-loop/lid; other site 471855005887 ABC transporter signature motif; other site 471855005888 Walker B; other site 471855005889 D-loop; other site 471855005890 H-loop/switch region; other site 471855005891 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855005892 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 471855005893 Walker A/P-loop; other site 471855005894 ATP binding site [chemical binding]; other site 471855005895 Q-loop/lid; other site 471855005896 ABC transporter signature motif; other site 471855005897 Walker B; other site 471855005898 D-loop; other site 471855005899 H-loop/switch region; other site 471855005900 transcriptional regulator FimZ; Provisional; Region: PRK09935 471855005901 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 471855005902 DNA binding residues [nucleotide binding] 471855005903 dimerization interface [polypeptide binding]; other site 471855005904 FAD dependent oxidoreductase; Region: DAO; pfam01266 471855005905 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 471855005906 EamA-like transporter family; Region: EamA; cl01037 471855005907 EamA-like transporter family; Region: EamA; cl01037 471855005908 Amino acid permease; Region: AA_permease_2; pfam13520 471855005909 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 471855005910 catalytic core [active] 471855005911 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 471855005912 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 471855005913 active site 471855005914 substrate binding site [chemical binding]; other site 471855005915 metal binding site [ion binding]; metal-binding site 471855005916 GtrA-like protein; Region: GtrA; cl00971 471855005917 adenylate kinase; Reviewed; Region: adk; PRK00279 471855005918 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 471855005919 AMP-binding site [chemical binding]; other site 471855005920 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 471855005921 Type III pantothenate kinase; Region: Pan_kinase; cl09130 471855005922 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 471855005923 Flavoprotein; Region: Flavoprotein; cl08021 471855005924 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 471855005925 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 471855005926 SecY translocase; Region: SecY; pfam00344 471855005927 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 471855005928 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 471855005929 23S rRNA binding site [nucleotide binding]; other site 471855005930 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 471855005931 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 471855005932 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 471855005933 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 471855005934 5S rRNA interface [nucleotide binding]; other site 471855005935 L27 interface [polypeptide binding]; other site 471855005936 23S rRNA interface [nucleotide binding]; other site 471855005937 L5 interface [polypeptide binding]; other site 471855005938 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 471855005939 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 471855005940 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 471855005941 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 471855005942 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 471855005943 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 471855005944 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 471855005945 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 471855005946 KOW motif; Region: KOW; cl00354 471855005947 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 471855005948 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 471855005949 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 471855005950 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 471855005951 23S rRNA interface [nucleotide binding]; other site 471855005952 putative translocon interaction site; other site 471855005953 signal recognition particle (SRP54) interaction site; other site 471855005954 L23 interface [polypeptide binding]; other site 471855005955 trigger factor interaction site; other site 471855005956 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 471855005957 23S rRNA interface [nucleotide binding]; other site 471855005958 5S rRNA interface [nucleotide binding]; other site 471855005959 putative antibiotic binding site [chemical binding]; other site 471855005960 L25 interface [polypeptide binding]; other site 471855005961 L27 interface [polypeptide binding]; other site 471855005962 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 471855005963 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 471855005964 G-X-X-G motif; other site 471855005965 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 471855005966 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 471855005967 putative translocon binding site; other site 471855005968 protein-rRNA interface [nucleotide binding]; other site 471855005969 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 471855005970 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 471855005971 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 471855005972 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 471855005973 DNA topoisomerase I; Validated; Region: PRK07219 471855005974 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 471855005975 active site 471855005976 putative interdomain interaction site [polypeptide binding]; other site 471855005977 putative metal-binding site [ion binding]; other site 471855005978 putative nucleotide binding site [chemical binding]; other site 471855005979 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 471855005980 domain I; other site 471855005981 DNA binding groove [nucleotide binding] 471855005982 phosphate binding site [ion binding]; other site 471855005983 domain II; other site 471855005984 domain III; other site 471855005985 nucleotide binding site [chemical binding]; other site 471855005986 catalytic site [active] 471855005987 domain IV; other site 471855005988 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 471855005989 Spore germination protein; Region: Spore_permease; cl15802 471855005990 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 471855005991 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 471855005992 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 471855005993 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 471855005994 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 471855005995 substrate binding pocket [chemical binding]; other site 471855005996 dimer interface [polypeptide binding]; other site 471855005997 inhibitor binding site; inhibition site 471855005998 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 471855005999 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 471855006000 B12 binding site [chemical binding]; other site 471855006001 cobalt ligand [ion binding]; other site 471855006002 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 471855006003 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 471855006004 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 471855006005 FAD binding site [chemical binding]; other site 471855006006 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 471855006007 Peptidase family U32; Region: Peptidase_U32; cl03113 471855006008 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 471855006009 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 471855006010 Walker A/P-loop; other site 471855006011 ATP binding site [chemical binding]; other site 471855006012 Q-loop/lid; other site 471855006013 ABC transporter signature motif; other site 471855006014 Walker B; other site 471855006015 D-loop; other site 471855006016 H-loop/switch region; other site 471855006017 FtsX-like permease family; Region: FtsX; cl15850 471855006018 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855006019 prolyl-tRNA synthetase; Provisional; Region: PRK09194 471855006020 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 471855006021 dimer interface [polypeptide binding]; other site 471855006022 motif 1; other site 471855006023 active site 471855006024 motif 2; other site 471855006025 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 471855006026 putative deacylase active site [active] 471855006027 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 471855006028 active site 471855006029 motif 3; other site 471855006030 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 471855006031 anticodon binding site; other site 471855006032 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 471855006033 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 471855006034 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 471855006035 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 471855006036 active site 471855006037 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 471855006038 zinc metallopeptidase RseP; Provisional; Region: PRK10779 471855006039 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 471855006040 putative substrate binding region [chemical binding]; other site 471855006041 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 471855006042 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 471855006043 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 471855006044 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 471855006045 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 471855006046 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 471855006047 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 471855006048 catalytic residue [active] 471855006049 putative FPP diphosphate binding site; other site 471855006050 putative FPP binding hydrophobic cleft; other site 471855006051 dimer interface [polypeptide binding]; other site 471855006052 putative IPP diphosphate binding site; other site 471855006053 ribosome recycling factor; Reviewed; Region: frr; PRK00083 471855006054 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 471855006055 hinge region; other site 471855006056 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 471855006057 putative nucleotide binding site [chemical binding]; other site 471855006058 uridine monophosphate binding site [chemical binding]; other site 471855006059 homohexameric interface [polypeptide binding]; other site 471855006060 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 471855006061 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 471855006062 protein binding site [polypeptide binding]; other site 471855006063 Phosphopantetheine attachment site; Region: PP-binding; cl09936 471855006064 TM2 domain; Region: TM2; cl00984 471855006065 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 471855006066 Major Facilitator Superfamily; Region: MFS_1; pfam07690 471855006067 putative substrate translocation pore; other site 471855006068 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 471855006069 transcription termination factor Rho; Provisional; Region: rho; PRK09376 471855006070 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 471855006071 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 471855006072 RNA binding site [nucleotide binding]; other site 471855006073 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 471855006074 multimer interface [polypeptide binding]; other site 471855006075 Walker A motif; other site 471855006076 ATP binding site [chemical binding]; other site 471855006077 Walker B motif; other site 471855006078 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 471855006079 active site 471855006080 intersubunit interactions; other site 471855006081 catalytic residue [active] 471855006082 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 471855006083 non-specific DNA binding site [nucleotide binding]; other site 471855006084 salt bridge; other site 471855006085 sequence-specific DNA binding site [nucleotide binding]; other site 471855006086 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 471855006087 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 471855006088 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 471855006089 putative ATP binding site [chemical binding]; other site 471855006090 putative substrate interface [chemical binding]; other site 471855006091 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 471855006092 active site 2 [active] 471855006093 active site 1 [active] 471855006094 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 471855006095 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 471855006096 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 471855006097 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 471855006098 active site 471855006099 TIGR02452 family protein; Region: TIGR02452 471855006100 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 471855006101 HIRAN domain; Region: HIRAN; cl07418 471855006102 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 471855006103 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 471855006104 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 471855006105 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 471855006106 putative NAD(P) binding site [chemical binding]; other site 471855006107 active site 471855006108 putative substrate binding site [chemical binding]; other site 471855006109 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 471855006110 AMP-binding enzyme; Region: AMP-binding; cl15778 471855006111 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 471855006112 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 471855006113 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 471855006114 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 471855006115 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 471855006116 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 471855006117 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855006118 Helix-turn-helix domains; Region: HTH; cl00088 471855006119 Leucine carboxyl methyltransferase; Region: LCM; cl01306 471855006120 Predicted permeases [General function prediction only]; Region: RarD; COG2962 471855006121 EamA-like transporter family; Region: EamA; cl01037 471855006122 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 471855006123 dimer interface [polypeptide binding]; other site 471855006124 phosphorylation site [posttranslational modification] 471855006125 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 471855006126 ATP binding site [chemical binding]; other site 471855006127 Mg2+ binding site [ion binding]; other site 471855006128 G-X-G motif; other site 471855006129 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 471855006130 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 471855006131 active site 471855006132 phosphorylation site [posttranslational modification] 471855006133 intermolecular recognition site; other site 471855006134 dimerization interface [polypeptide binding]; other site 471855006135 Helix-turn-helix domains; Region: HTH; cl00088 471855006136 DNA binding site [nucleotide binding] 471855006137 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 471855006138 synthetase active site [active] 471855006139 NTP binding site [chemical binding]; other site 471855006140 metal binding site [ion binding]; metal-binding site 471855006141 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 471855006142 Major Facilitator Superfamily; Region: MFS_1; pfam07690 471855006143 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 471855006144 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 471855006145 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 471855006146 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 471855006147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855006148 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 471855006149 active site 471855006150 catalytic triad [active] 471855006151 oxyanion hole [active] 471855006152 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 471855006153 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 471855006154 dimer interface [polypeptide binding]; other site 471855006155 active site 471855006156 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 471855006157 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 471855006158 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 471855006159 Walker A/P-loop; other site 471855006160 ATP binding site [chemical binding]; other site 471855006161 Q-loop/lid; other site 471855006162 ABC transporter signature motif; other site 471855006163 Walker B; other site 471855006164 D-loop; other site 471855006165 H-loop/switch region; other site 471855006166 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 471855006167 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 471855006168 Walker A/P-loop; other site 471855006169 ATP binding site [chemical binding]; other site 471855006170 Q-loop/lid; other site 471855006171 ABC transporter signature motif; other site 471855006172 Walker B; other site 471855006173 D-loop; other site 471855006174 H-loop/switch region; other site 471855006175 Cobalt transport protein; Region: CbiQ; cl00463 471855006176 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855006177 Helix-turn-helix domains; Region: HTH; cl00088 471855006178 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 471855006179 active site 471855006180 metal binding site [ion binding]; metal-binding site 471855006181 nudix motif; other site 471855006182 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 471855006183 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 471855006184 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 471855006185 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855006186 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855006187 Helix-turn-helix domains; Region: HTH; cl00088 471855006188 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 471855006189 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 471855006190 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 471855006191 NAD(P) binding site [chemical binding]; other site 471855006192 catalytic residues [active] 471855006193 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 471855006194 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 471855006195 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 471855006196 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 471855006197 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 471855006198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855006199 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 471855006200 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 471855006201 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 471855006202 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 471855006203 FMN binding site [chemical binding]; other site 471855006204 dimer interface [polypeptide binding]; other site 471855006205 RelB antitoxin; Region: RelB; cl01171 471855006206 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 471855006207 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 471855006208 dimerization interface [polypeptide binding]; other site 471855006209 domain crossover interface; other site 471855006210 redox-dependent activation switch; other site 471855006211 PAS fold; Region: PAS_4; pfam08448 471855006212 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 471855006213 metal binding site [ion binding]; metal-binding site 471855006214 active site 471855006215 I-site; other site 471855006216 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 471855006217 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 471855006218 Helix-turn-helix domains; Region: HTH; cl00088 471855006219 Bacterial transcriptional activator domain; Region: BTAD; smart01043 471855006220 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 471855006221 TPR motif; other site 471855006222 binding surface 471855006223 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 471855006224 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 471855006225 domain interaction interfaces; other site 471855006226 putative Ca2+ binding sites [ion binding]; other site 471855006227 Sortase C (SrtC) or subfamily-3 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_C_3; cd05827 471855006228 active site 471855006229 catalytic site [active] 471855006230 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 471855006231 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855006232 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 471855006233 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 471855006234 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 471855006235 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 471855006236 Glycerate kinase family; Region: Gly_kinase; cl00841 471855006237 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855006238 Helix-turn-helix domains; Region: HTH; cl00088 471855006239 FMN-binding domain; Region: FMN_bind; cl01081 471855006240 hypothetical protein; Validated; Region: PRK07121 471855006241 recombination factor protein RarA; Reviewed; Region: PRK13342 471855006242 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 471855006243 Walker A motif; other site 471855006244 ATP binding site [chemical binding]; other site 471855006245 Walker B motif; other site 471855006246 arginine finger; other site 471855006247 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 471855006248 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855006249 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 471855006250 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 471855006251 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 471855006252 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 471855006253 Walker A/P-loop; other site 471855006254 ATP binding site [chemical binding]; other site 471855006255 Q-loop/lid; other site 471855006256 ABC transporter signature motif; other site 471855006257 Walker B; other site 471855006258 D-loop; other site 471855006259 H-loop/switch region; other site 471855006260 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 471855006261 ABC-ATPase subunit interface; other site 471855006262 dimer interface [polypeptide binding]; other site 471855006263 putative PBP binding regions; other site 471855006264 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cd00636 471855006265 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 471855006266 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 471855006267 intersubunit interface [polypeptide binding]; other site 471855006268 intersubunit interface [polypeptide binding]; other site 471855006269 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 471855006270 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 471855006271 active site 471855006272 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 471855006273 active site 471855006274 N-terminal domain interface [polypeptide binding]; other site 471855006275 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855006276 Helix-turn-helix domains; Region: HTH; cl00088 471855006277 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 471855006278 Helix-turn-helix domains; Region: HTH; cl00088 471855006279 Radical SAM superfamily; Region: Radical_SAM; pfam04055 471855006280 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 471855006281 FeS/SAM binding site; other site 471855006282 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 471855006283 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 471855006284 DNA binding residues [nucleotide binding] 471855006285 dimerization interface [polypeptide binding]; other site 471855006286 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 471855006287 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 471855006288 molybdopterin cofactor binding site; other site 471855006289 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 471855006290 molybdopterin cofactor binding site; other site 471855006291 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 471855006292 4Fe-4S binding domain; Region: Fer4; cl02805 471855006293 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 471855006294 4Fe-4S binding domain; Region: Fer4; cl02805 471855006295 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 471855006296 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 471855006297 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 471855006298 dimer interface [polypeptide binding]; other site 471855006299 putative functional site; other site 471855006300 putative MPT binding site; other site 471855006301 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 471855006302 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 471855006303 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 471855006304 dimer interface [polypeptide binding]; other site 471855006305 putative functional site; other site 471855006306 putative MPT binding site; other site 471855006307 Fic family protein [Function unknown]; Region: COG3177 471855006308 Fic/DOC family; Region: Fic; cl00960 471855006309 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 471855006310 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 471855006311 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 471855006312 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 471855006313 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 471855006314 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 471855006315 MoaE interaction surface [polypeptide binding]; other site 471855006316 MoeB interaction surface [polypeptide binding]; other site 471855006317 thiocarboxylated glycine; other site 471855006318 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 471855006319 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 471855006320 putative dimer interface [polypeptide binding]; other site 471855006321 [2Fe-2S] cluster binding site [ion binding]; other site 471855006322 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 471855006323 dimer interface [polypeptide binding]; other site 471855006324 [2Fe-2S] cluster binding site [ion binding]; other site 471855006325 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 471855006326 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 471855006327 SLBB domain; Region: SLBB; pfam10531 471855006328 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 471855006329 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 471855006330 4Fe-4S binding domain; Region: Fer4; cl02805 471855006331 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 471855006332 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 471855006333 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 471855006334 ATP binding site [chemical binding]; other site 471855006335 substrate interface [chemical binding]; other site 471855006336 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 471855006337 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 471855006338 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 471855006339 ABC-ATPase subunit interface; other site 471855006340 dimer interface [polypeptide binding]; other site 471855006341 putative PBP binding regions; other site 471855006342 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 471855006343 putative ligand binding residues [chemical binding]; other site 471855006344 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 471855006345 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 471855006346 putative FMN binding site [chemical binding]; other site 471855006347 Flavin Reductases; Region: FlaRed; cl00801 471855006348 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 471855006349 Rubredoxin; Region: Rubredoxin; pfam00301 471855006350 iron binding site [ion binding]; other site 471855006351 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 471855006352 tetracycline repressor protein TetR; Provisional; Region: PRK13756 471855006353 Helix-turn-helix domains; Region: HTH; cl00088 471855006354 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 471855006355 dimerization interface [polypeptide binding]; other site 471855006356 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 471855006357 heme-binding site [chemical binding]; other site 471855006358 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 471855006359 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 471855006360 active site 471855006361 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 471855006362 active site 471855006363 N-terminal domain interface [polypeptide binding]; other site 471855006364 ABC-2 type transporter; Region: ABC2_membrane; cl11417 471855006365 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 471855006366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855006367 Walker A/P-loop; other site 471855006368 ATP binding site [chemical binding]; other site 471855006369 Q-loop/lid; other site 471855006370 ABC transporter signature motif; other site 471855006371 Walker B; other site 471855006372 D-loop; other site 471855006373 H-loop/switch region; other site 471855006374 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 471855006375 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 471855006376 EamA-like transporter family; Region: EamA; cl01037 471855006377 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 471855006378 EamA-like transporter family; Region: EamA; cl01037 471855006379 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 471855006380 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 471855006381 NodB motif; other site 471855006382 active site 471855006383 catalytic site [active] 471855006384 Zn binding site [ion binding]; other site 471855006385 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 471855006386 homodecamer interface [polypeptide binding]; other site 471855006387 GTP cyclohydrolase I; Provisional; Region: PLN03044 471855006388 active site 471855006389 putative catalytic site residues [active] 471855006390 zinc binding site [ion binding]; other site 471855006391 GTP-CH-I/GFRP interaction surface; other site 471855006392 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 471855006393 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 471855006394 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 471855006395 homodimer interface [polypeptide binding]; other site 471855006396 NADP binding site [chemical binding]; other site 471855006397 substrate binding site [chemical binding]; other site 471855006398 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 471855006399 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 471855006400 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 471855006401 Potassium binding sites [ion binding]; other site 471855006402 Cesium cation binding sites [ion binding]; other site 471855006403 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 471855006404 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 471855006405 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855006406 Helix-turn-helix domains; Region: HTH; cl00088 471855006407 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 471855006408 dimerization interface [polypeptide binding]; other site 471855006409 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 471855006410 metal binding site [ion binding]; metal-binding site 471855006411 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 471855006412 classical (c) SDRs; Region: SDR_c; cd05233 471855006413 NAD(P) binding site [chemical binding]; other site 471855006414 active site 471855006415 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 471855006416 DNA binding residues [nucleotide binding] 471855006417 dimerization interface [polypeptide binding]; other site 471855006418 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 471855006419 ring oligomerisation interface [polypeptide binding]; other site 471855006420 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 471855006421 ATP/Mg binding site [chemical binding]; other site 471855006422 stacking interactions; other site 471855006423 hinge regions; other site 471855006424 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 471855006425 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 471855006426 DNA binding residues [nucleotide binding] 471855006427 dimerization interface [polypeptide binding]; other site 471855006428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855006429 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 471855006430 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 471855006431 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 471855006432 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 471855006433 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 471855006434 metal binding site 2 [ion binding]; metal-binding site 471855006435 putative DNA binding helix; other site 471855006436 metal binding site 1 [ion binding]; metal-binding site 471855006437 dimer interface [polypeptide binding]; other site 471855006438 structural Zn2+ binding site [ion binding]; other site 471855006439 peroxiredoxin; Region: AhpC; TIGR03137 471855006440 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 471855006441 dimer interface [polypeptide binding]; other site 471855006442 decamer (pentamer of dimers) interface [polypeptide binding]; other site 471855006443 catalytic triad [active] 471855006444 peroxidatic and resolving cysteines [active] 471855006445 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 471855006446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855006447 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 471855006448 catalytic residue [active] 471855006449 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 471855006450 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 471855006451 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 471855006452 CPxP motif; other site 471855006453 Sulphur transport; Region: Sulf_transp; cl01018 471855006454 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 471855006455 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 471855006456 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 471855006457 Acetokinase family; Region: Acetate_kinase; cl01029 471855006458 propionate/acetate kinase; Provisional; Region: PRK12379 471855006459 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855006460 Helix-turn-helix domains; Region: HTH; cl00088 471855006461 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 471855006462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855006463 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 471855006464 dimer interface [polypeptide binding]; other site 471855006465 active site 471855006466 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 471855006467 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 471855006468 catalytic residues [active] 471855006469 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 471855006470 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 471855006471 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 471855006472 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 471855006473 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 471855006474 Uncharacterized membrane protein [Function unknown]; Region: COG3949 471855006475 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 471855006476 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 471855006477 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 471855006478 catalytic loop [active] 471855006479 iron binding site [ion binding]; other site 471855006480 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 471855006481 4Fe-4S binding domain; Region: Fer4; cl02805 471855006482 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_Formate-Dh-H; cd02753 471855006483 [4Fe-4S] binding site [ion binding]; other site 471855006484 molybdopterin cofactor binding site; other site 471855006485 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 471855006486 molybdopterin cofactor binding site; other site 471855006487 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 471855006488 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 471855006489 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 471855006490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855006491 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 471855006492 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 471855006493 G1 box; other site 471855006494 putative GEF interaction site [polypeptide binding]; other site 471855006495 GTP/Mg2+ binding site [chemical binding]; other site 471855006496 Switch I region; other site 471855006497 G2 box; other site 471855006498 G3 box; other site 471855006499 Switch II region; other site 471855006500 G4 box; other site 471855006501 G5 box; other site 471855006502 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 471855006503 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 471855006504 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 471855006505 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 471855006506 selenocysteine synthase; Provisional; Region: PRK04311 471855006507 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 471855006508 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 471855006509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855006510 Helix-turn-helix domains; Region: HTH; cl00088 471855006511 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 471855006512 dimerization interface [polypeptide binding]; other site 471855006513 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 471855006514 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 471855006515 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 471855006516 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 471855006517 thiamine-monophosphate kinase; Region: thiL; TIGR01379 471855006518 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 471855006519 dimerization interface [polypeptide binding]; other site 471855006520 putative ATP binding site [chemical binding]; other site 471855006521 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 471855006522 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 471855006523 BCCT family transporter; Region: BCCT; cl00569 471855006524 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 471855006525 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 471855006526 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 471855006527 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 471855006528 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 471855006529 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 471855006530 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 471855006531 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 471855006532 catalytic residue [active] 471855006533 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 471855006534 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 471855006535 CPxP motif; other site 471855006536 DsrE/DsrF-like family; Region: DrsE; cl00672 471855006537 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 471855006538 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 471855006539 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 471855006540 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 471855006541 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 471855006542 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 471855006543 putative active site [active] 471855006544 putative metal binding site [ion binding]; other site 471855006545 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 471855006546 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 471855006547 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 471855006548 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855006549 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855006550 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855006551 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855006552 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 471855006553 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 471855006554 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 471855006555 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 471855006556 FeS/SAM binding site; other site 471855006557 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 471855006558 nudix motif; other site 471855006559 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 471855006560 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 471855006561 active site 471855006562 NAD binding site [chemical binding]; other site 471855006563 metal binding site [ion binding]; metal-binding site 471855006564 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 471855006565 Sterol carrier protein domain; Region: SCP2_2; pfam13530 471855006566 Helix-turn-helix domains; Region: HTH; cl00088 471855006567 Helix-turn-helix domains; Region: HTH; cl00088 471855006568 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 471855006569 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 471855006570 AMP-binding enzyme; Region: AMP-binding; cl15778 471855006571 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 471855006572 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 471855006573 Coenzyme A binding pocket [chemical binding]; other site 471855006574 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 471855006575 non-specific DNA binding site [nucleotide binding]; other site 471855006576 salt bridge; other site 471855006577 sequence-specific DNA binding site [nucleotide binding]; other site 471855006578 Glutaminase; Region: Glutaminase; cl00907 471855006579 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855006580 Helix-turn-helix domains; Region: HTH; cl00088 471855006581 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855006582 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855006583 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855006584 Walker A/P-loop; other site 471855006585 ATP binding site [chemical binding]; other site 471855006586 Q-loop/lid; other site 471855006587 ABC transporter signature motif; other site 471855006588 Walker B; other site 471855006589 D-loop; other site 471855006590 H-loop/switch region; other site 471855006591 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855006592 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855006593 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 471855006594 Walker A/P-loop; other site 471855006595 ATP binding site [chemical binding]; other site 471855006596 Q-loop/lid; other site 471855006597 ABC transporter signature motif; other site 471855006598 Walker B; other site 471855006599 D-loop; other site 471855006600 H-loop/switch region; other site 471855006601 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 471855006602 Cobalt transport protein; Region: CbiQ; cl00463 471855006603 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 471855006604 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 471855006605 Walker A/P-loop; other site 471855006606 ATP binding site [chemical binding]; other site 471855006607 Q-loop/lid; other site 471855006608 ABC transporter signature motif; other site 471855006609 Walker B; other site 471855006610 D-loop; other site 471855006611 H-loop/switch region; other site 471855006612 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 471855006613 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 471855006614 Walker A/P-loop; other site 471855006615 ATP binding site [chemical binding]; other site 471855006616 Q-loop/lid; other site 471855006617 ABC transporter signature motif; other site 471855006618 Walker B; other site 471855006619 D-loop; other site 471855006620 H-loop/switch region; other site 471855006621 Flavin Reductases; Region: FlaRed; cl00801 471855006622 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 471855006623 MgtE intracellular N domain; Region: MgtE_N; cl15244 471855006624 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 471855006625 Divalent cation transporter; Region: MgtE; cl00786 471855006626 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 471855006627 FMN binding site [chemical binding]; other site 471855006628 substrate binding site [chemical binding]; other site 471855006629 putative catalytic residue [active] 471855006630 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 471855006631 NMT1-like family; Region: NMT1_2; cl15260 471855006632 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 471855006633 dimer interface [polypeptide binding]; other site 471855006634 conserved gate region; other site 471855006635 ABC-ATPase subunit interface; other site 471855006636 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 471855006637 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 471855006638 Walker A/P-loop; other site 471855006639 ATP binding site [chemical binding]; other site 471855006640 Q-loop/lid; other site 471855006641 ABC transporter signature motif; other site 471855006642 Walker B; other site 471855006643 D-loop; other site 471855006644 H-loop/switch region; other site 471855006645 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 471855006646 B12 binding site [chemical binding]; other site 471855006647 cobalt ligand [ion binding]; other site 471855006648 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 471855006649 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 471855006650 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 471855006651 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 471855006652 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 471855006653 non-specific DNA binding site [nucleotide binding]; other site 471855006654 salt bridge; other site 471855006655 sequence-specific DNA binding site [nucleotide binding]; other site 471855006656 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 471855006657 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 471855006658 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 471855006659 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 471855006660 non-specific DNA binding site [nucleotide binding]; other site 471855006661 salt bridge; other site 471855006662 sequence-specific DNA binding site [nucleotide binding]; other site 471855006663 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 471855006664 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 471855006665 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 471855006666 TfoX N-terminal domain; Region: TfoX_N; cl01167 471855006667 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 471855006668 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 471855006669 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 471855006670 Helix-turn-helix domains; Region: HTH; cl00088 471855006671 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 471855006672 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 471855006673 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 471855006674 S-adenosylmethionine binding site [chemical binding]; other site 471855006675 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 471855006676 non-specific DNA binding site [nucleotide binding]; other site 471855006677 salt bridge; other site 471855006678 sequence-specific DNA binding site [nucleotide binding]; other site 471855006679 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 471855006680 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 471855006681 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 471855006682 NADH(P)-binding; Region: NAD_binding_10; pfam13460 471855006683 NAD binding site [chemical binding]; other site 471855006684 substrate binding site [chemical binding]; other site 471855006685 putative active site [active] 471855006686 Predicted transcriptional regulator [Transcription]; Region: COG1959 471855006687 Helix-turn-helix domains; Region: HTH; cl00088 471855006688 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 471855006689 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 471855006690 Short C-terminal domain; Region: SHOCT; cl01373 471855006691 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 471855006692 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855006693 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855006694 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855006695 Walker A/P-loop; other site 471855006696 ATP binding site [chemical binding]; other site 471855006697 Q-loop/lid; other site 471855006698 ABC transporter signature motif; other site 471855006699 Walker B; other site 471855006700 D-loop; other site 471855006701 H-loop/switch region; other site 471855006702 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 471855006703 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 471855006704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855006705 Walker A/P-loop; other site 471855006706 ATP binding site [chemical binding]; other site 471855006707 Q-loop/lid; other site 471855006708 ABC transporter signature motif; other site 471855006709 Walker B; other site 471855006710 D-loop; other site 471855006711 H-loop/switch region; other site 471855006712 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 471855006713 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 471855006714 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 471855006715 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 471855006716 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 471855006717 catalytic loop [active] 471855006718 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 471855006719 iron binding site [ion binding]; other site 471855006720 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 471855006721 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 471855006722 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 471855006723 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855006724 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 471855006725 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855006726 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 471855006727 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 471855006728 Walker A/P-loop; other site 471855006729 ATP binding site [chemical binding]; other site 471855006730 Q-loop/lid; other site 471855006731 ABC transporter signature motif; other site 471855006732 Walker B; other site 471855006733 D-loop; other site 471855006734 H-loop/switch region; other site 471855006735 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 471855006736 FtsX-like permease family; Region: FtsX; cl15850 471855006737 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 471855006738 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 471855006739 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 471855006740 dimer interface [polypeptide binding]; other site 471855006741 ADP-ribose binding site [chemical binding]; other site 471855006742 active site 471855006743 nudix motif; other site 471855006744 metal binding site [ion binding]; metal-binding site 471855006745 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 471855006746 Domain of unknown function DUF20; Region: UPF0118; pfam01594 471855006747 seryl-tRNA synthetase; Provisional; Region: PRK05431 471855006748 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 471855006749 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 471855006750 dimer interface [polypeptide binding]; other site 471855006751 active site 471855006752 motif 1; other site 471855006753 motif 2; other site 471855006754 motif 3; other site 471855006755 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 471855006756 dimer interface [polypeptide binding]; other site 471855006757 pyridoxal binding site [chemical binding]; other site 471855006758 ATP binding site [chemical binding]; other site 471855006759 EamA-like transporter family; Region: EamA; cl01037 471855006760 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 471855006761 EamA-like transporter family; Region: EamA; cl01037 471855006762 homoserine dehydrogenase; Provisional; Region: PRK06349 471855006763 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 471855006764 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 471855006765 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855006766 Protein of unknown function (DUF3160); Region: DUF3160; pfam11369 471855006767 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 471855006768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855006769 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 471855006770 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 471855006771 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 471855006772 transmembrane helices; other site 471855006773 Rrf2 family protein; Region: rrf2_super; TIGR00738 471855006774 Helix-turn-helix domains; Region: HTH; cl00088 471855006775 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 471855006776 FMN binding site [chemical binding]; other site 471855006777 dimer interface [polypeptide binding]; other site 471855006778 CpXC protein; Region: CpXC; pfam14353 471855006779 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 471855006780 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 471855006781 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 471855006782 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 471855006783 non-specific DNA binding site [nucleotide binding]; other site 471855006784 salt bridge; other site 471855006785 sequence-specific DNA binding site [nucleotide binding]; other site 471855006786 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 471855006787 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 471855006788 Int/Topo IB signature motif; other site 471855006789 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 471855006790 Cation efflux family; Region: Cation_efflux; cl00316 471855006791 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 471855006792 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 471855006793 active site 471855006794 argininosuccinate lyase; Provisional; Region: PRK00855 471855006795 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 471855006796 active sites [active] 471855006797 tetramer interface [polypeptide binding]; other site 471855006798 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 471855006799 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 471855006800 ANP binding site [chemical binding]; other site 471855006801 Substrate Binding Site II [chemical binding]; other site 471855006802 Substrate Binding Site I [chemical binding]; other site 471855006803 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 471855006804 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 471855006805 dimer interface [polypeptide binding]; other site 471855006806 putative functional site; other site 471855006807 putative MPT binding site; other site 471855006808 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 471855006809 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 471855006810 phosphate binding site [ion binding]; other site 471855006811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855006812 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855006813 Helix-turn-helix domains; Region: HTH; cl00088 471855006814 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 471855006815 dimerization interface [polypeptide binding]; other site 471855006816 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 471855006817 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 471855006818 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 471855006819 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 471855006820 nucleotide binding pocket [chemical binding]; other site 471855006821 K-X-D-G motif; other site 471855006822 catalytic site [active] 471855006823 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 471855006824 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 471855006825 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 471855006826 Dimer interface [polypeptide binding]; other site 471855006827 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 471855006828 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 471855006829 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 471855006830 glutaminase active site [active] 471855006831 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 471855006832 dimer interface [polypeptide binding]; other site 471855006833 active site 471855006834 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 471855006835 dimer interface [polypeptide binding]; other site 471855006836 active site 471855006837 Sel1 repeat; Region: Sel1; cl02723 471855006838 Sel1 repeat; Region: Sel1; cl02723 471855006839 HIRAN domain; Region: HIRAN; cl07418 471855006840 FHIPEP family; Region: FHIPEP; pfam00771 471855006841 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; cl02542 471855006842 HSP70 interaction site [polypeptide binding]; other site 471855006843 Predicted membrane protein [Function unknown]; Region: COG1511 471855006844 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 471855006845 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855006846 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 471855006847 Walker A/P-loop; other site 471855006848 ATP binding site [chemical binding]; other site 471855006849 Q-loop/lid; other site 471855006850 ABC transporter signature motif; other site 471855006851 Walker B; other site 471855006852 D-loop; other site 471855006853 H-loop/switch region; other site 471855006854 Helix-turn-helix domains; Region: HTH; cl00088 471855006855 Rrf2 family protein; Region: rrf2_super; TIGR00738 471855006856 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855006857 FeS assembly ATPase SufC; Region: sufC; TIGR01978 471855006858 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 471855006859 Walker A/P-loop; other site 471855006860 ATP binding site [chemical binding]; other site 471855006861 Q-loop/lid; other site 471855006862 ABC transporter signature motif; other site 471855006863 Walker B; other site 471855006864 D-loop; other site 471855006865 H-loop/switch region; other site 471855006866 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 471855006867 FeS assembly protein SufB; Region: sufB; TIGR01980 471855006868 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 471855006869 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 471855006870 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 471855006871 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 471855006872 catalytic residue [active] 471855006873 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 471855006874 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 471855006875 trimerization site [polypeptide binding]; other site 471855006876 active site 471855006877 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 471855006878 NAD-dependent deacetylase; Provisional; Region: PRK00481 471855006879 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 471855006880 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 471855006881 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 471855006882 FeS/SAM binding site; other site 471855006883 Protein of unknown function DUF111; Region: DUF111; cl03398 471855006884 Protein of unknown function DUF111; Region: DUF111; cl03398 471855006885 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 471855006886 AIR carboxylase; Region: AIRC; cl00310 471855006887 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 471855006888 DNA binding residues [nucleotide binding] 471855006889 dimerization interface [polypeptide binding]; other site 471855006890 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 471855006891 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 471855006892 Cysteine-rich domain; Region: CCG; pfam02754 471855006893 Cysteine-rich domain; Region: CCG; pfam02754 471855006894 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 471855006895 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 471855006896 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 471855006897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855006898 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 471855006899 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 471855006900 Fumarase C-terminus; Region: Fumerase_C; cl00795 471855006901 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 471855006902 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 471855006903 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 471855006904 transmembrane helices; other site 471855006905 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 471855006906 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 471855006907 transmembrane helices; other site 471855006908 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 471855006909 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 471855006910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855006911 Helix-turn-helix domains; Region: HTH; cl00088 471855006912 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 471855006913 Ferrochelatase; Region: Ferrochelatase; pfam00762 471855006914 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 471855006915 C-terminal domain interface [polypeptide binding]; other site 471855006916 active site 471855006917 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 471855006918 active site 471855006919 N-terminal domain interface [polypeptide binding]; other site 471855006920 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 471855006921 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855006922 active site 471855006923 ATP binding site [chemical binding]; other site 471855006924 substrate binding site [chemical binding]; other site 471855006925 activation loop (A-loop); other site 471855006926 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 471855006927 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 471855006928 phosphopeptide binding site; other site 471855006929 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 471855006930 phosphopeptide binding site; other site 471855006931 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 471855006932 Protein phosphatase 2C; Region: PP2C; pfam00481 471855006933 active site 471855006934 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 471855006935 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 471855006936 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 471855006937 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 471855006938 Catalytic domain of Protein Kinases; Region: PKc; cd00180 471855006939 active site 471855006940 ATP binding site [chemical binding]; other site 471855006941 substrate binding site [chemical binding]; other site 471855006942 activation loop (A-loop); other site 471855006943 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 471855006944 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 471855006945 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 471855006946 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 471855006947 EamA-like transporter family; Region: EamA; cl01037 471855006948 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 471855006949 EamA-like transporter family; Region: EamA; cl01037 471855006950 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 471855006951 homooctamer interface [polypeptide binding]; other site 471855006952 active site 471855006953 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 471855006954 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 471855006955 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855006956 Tic20-like protein; Region: Tic20; pfam09685 471855006957 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 471855006958 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 471855006959 dimer interface [polypeptide binding]; other site 471855006960 conserved gate region; other site 471855006961 putative PBP binding loops; other site 471855006962 ABC-ATPase subunit interface; other site 471855006963 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 471855006964 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855006965 Walker A/P-loop; other site 471855006966 ATP binding site [chemical binding]; other site 471855006967 Q-loop/lid; other site 471855006968 ABC transporter signature motif; other site 471855006969 Walker B; other site 471855006970 D-loop; other site 471855006971 H-loop/switch region; other site 471855006972 aspartate aminotransferase; Provisional; Region: PRK06836 471855006973 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 471855006974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855006975 homodimer interface [polypeptide binding]; other site 471855006976 catalytic residue [active] 471855006977 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 471855006978 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 471855006979 Walker A/P-loop; other site 471855006980 ATP binding site [chemical binding]; other site 471855006981 Q-loop/lid; other site 471855006982 ABC transporter signature motif; other site 471855006983 Walker B; other site 471855006984 D-loop; other site 471855006985 H-loop/switch region; other site 471855006986 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 471855006987 NMT1-like family; Region: NMT1_2; cl15260 471855006988 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 471855006989 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 471855006990 dimer interface [polypeptide binding]; other site 471855006991 conserved gate region; other site 471855006992 putative PBP binding loops; other site 471855006993 ABC-ATPase subunit interface; other site 471855006994 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 471855006995 putative active site [active] 471855006996 metal binding site [ion binding]; metal-binding site 471855006997 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 471855006998 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 471855006999 homodimer interface [polypeptide binding]; other site 471855007000 substrate-cofactor binding pocket; other site 471855007001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855007002 catalytic residue [active] 471855007003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 471855007004 Helix-turn-helix domains; Region: HTH; cl00088 471855007005 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 471855007006 dimerization interface [polypeptide binding]; other site 471855007007 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 471855007008 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 471855007009 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 471855007010 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 471855007011 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 471855007012 molybdopterin cofactor binding site; other site 471855007013 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 471855007014 molybdopterin cofactor binding site; other site 471855007015 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 471855007016 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855007017 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 471855007018 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 471855007019 FOG: CBS domain [General function prediction only]; Region: COG0517 471855007020 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_23; cd04636 471855007021 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 471855007022 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 471855007023 Walker A/P-loop; other site 471855007024 ATP binding site [chemical binding]; other site 471855007025 Q-loop/lid; other site 471855007026 ABC transporter signature motif; other site 471855007027 Walker B; other site 471855007028 D-loop; other site 471855007029 H-loop/switch region; other site 471855007030 FtsX-like permease family; Region: FtsX; cl15850 471855007031 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855007032 4Fe-4S binding domain; Region: Fer4; cl02805 471855007033 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 471855007034 molybdopterin cofactor binding site; other site 471855007035 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 471855007036 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 471855007037 putative molybdopterin cofactor binding site; other site 471855007038 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 471855007039 DNA binding residues [nucleotide binding] 471855007040 dimerization interface [polypeptide binding]; other site 471855007041 Helix-turn-helix domains; Region: HTH; cl00088 471855007042 Helix-turn-helix domains; Region: HTH; cl00088 471855007043 Helix-turn-helix domains; Region: HTH; cl00088 471855007044 putative DNA binding helix; other site 471855007045 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855007046 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 471855007047 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 471855007048 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 471855007049 4Fe-4S binding domain; Region: Fer4_5; pfam12801 471855007050 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 471855007051 4Fe-4S binding domain; Region: Fer4; cl02805 471855007052 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 471855007053 4Fe-4S binding domain; Region: Fer4; cl02805 471855007054 Ferredoxin [Energy production and conversion]; Region: COG1146 471855007055 UDP-glucose 4-epimerase; Region: PLN02240 471855007056 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 471855007057 NAD binding site [chemical binding]; other site 471855007058 homodimer interface [polypeptide binding]; other site 471855007059 active site 471855007060 substrate binding site [chemical binding]; other site 471855007061 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 471855007062 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 471855007063 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 471855007064 EamA-like transporter family; Region: EamA; cl01037 471855007065 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 471855007066 EamA-like transporter family; Region: EamA; cl01037 471855007067 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 471855007068 AMP-binding enzyme; Region: AMP-binding; cl15778 471855007069 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 471855007070 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 471855007071 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 471855007072 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 471855007073 dimer interface [polypeptide binding]; other site 471855007074 PYR/PP interface [polypeptide binding]; other site 471855007075 TPP binding site [chemical binding]; other site 471855007076 substrate binding site [chemical binding]; other site 471855007077 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 471855007078 TPP-binding site; other site 471855007079 4Fe-4S binding domain; Region: Fer4; cl02805 471855007080 AIR carboxylase; Region: AIRC; cl00310 471855007081 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 471855007082 Transposase; Region: DEDD_Tnp_IS110; pfam01548 471855007083 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 471855007084 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 471855007085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 471855007086 Transposase; Region: DEDD_Tnp_IS110; pfam01548 471855007087 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 471855007088 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 471855007089 Helix-turn-helix domains; Region: HTH; cl00088 471855007090 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 471855007091 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 471855007092 molybdopterin cofactor binding site; other site 471855007093 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 471855007094 molybdopterin cofactor binding site; other site 471855007095 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 471855007096 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 471855007097 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855007098 Helix-turn-helix domains; Region: HTH; cl00088 471855007099 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 471855007100 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 471855007101 molybdopterin cofactor binding site; other site 471855007102 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 471855007103 molybdopterin cofactor binding site; other site 471855007104 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855007105 4Fe-4S binding domain; Region: Fer4; cl02805 471855007106 Polysulphide reductase, NrfD; Region: NrfD; cl01295 471855007107 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855007108 Helix-turn-helix domains; Region: HTH; cl00088 471855007109 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 471855007110 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 471855007111 molybdopterin cofactor binding site; other site 471855007112 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 471855007113 molybdopterin cofactor binding site; other site 471855007114 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 471855007115 4Fe-4S binding domain; Region: Fer4; cl02805 471855007116 Polysulphide reductase, NrfD; Region: NrfD; cl01295 471855007117 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 471855007118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855007119 oxidoreductase; Provisional; Region: PRK10015 471855007120 ferredoxin-like protein FixX; Provisional; Region: PRK15449 471855007121 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 471855007122 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 471855007123 FeS/SAM binding site; other site 471855007124 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 471855007125 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 471855007126 ATP-grasp domain; Region: ATP-grasp_4; cl03087 471855007127 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 471855007128 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 471855007129 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 471855007130 GDP-binding site [chemical binding]; other site 471855007131 ACT binding site; other site 471855007132 IMP binding site; other site 471855007133 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855007134 Walker A/P-loop; other site 471855007135 ATP binding site [chemical binding]; other site 471855007136 Q-loop/lid; other site 471855007137 ABC transporter signature motif; other site 471855007138 Walker B; other site 471855007139 AAA domain; Region: AAA_27; pfam13514 471855007140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855007141 ABC transporter signature motif; other site 471855007142 Walker B; other site 471855007143 D-loop; other site 471855007144 H-loop/switch region; other site 471855007145 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 471855007146 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 471855007147 active site 471855007148 metal binding site [ion binding]; metal-binding site 471855007149 DNA binding site [nucleotide binding] 471855007150 replicative DNA helicase; Region: DnaB; TIGR00665 471855007151 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 471855007152 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 471855007153 Walker A motif; other site 471855007154 ATP binding site [chemical binding]; other site 471855007155 Walker B motif; other site 471855007156 DNA binding loops [nucleotide binding] 471855007157 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 471855007158 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 471855007159 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 471855007160 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 471855007161 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 471855007162 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 471855007163 dimer interface [polypeptide binding]; other site 471855007164 ssDNA binding site [nucleotide binding]; other site 471855007165 tetramer (dimer of dimers) interface [polypeptide binding]; other site 471855007166 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 471855007167 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 471855007168 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855007169 Helix-turn-helix domains; Region: HTH; cl00088 471855007170 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 471855007171 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 471855007172 NlpC/P60 family; Region: NLPC_P60; cl11438 471855007173 SurA N-terminal domain; Region: SurA_N_3; cl07813 471855007174 PPIC-type PPIASE domain; Region: Rotamase; cl08278 471855007175 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 471855007176 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 471855007177 G1 box; other site 471855007178 putative GEF interaction site [polypeptide binding]; other site 471855007179 GTP/Mg2+ binding site [chemical binding]; other site 471855007180 Switch I region; other site 471855007181 G2 box; other site 471855007182 G3 box; other site 471855007183 Switch II region; other site 471855007184 G4 box; other site 471855007185 G5 box; other site 471855007186 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 471855007187 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 471855007188 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 471855007189 HSP70 interaction site [polypeptide binding]; other site 471855007190 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 471855007191 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 471855007192 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855007193 Helix-turn-helix domains; Region: HTH; cl00088 471855007194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 471855007195 LemA family; Region: LemA; cl00742 471855007196 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 471855007197 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 471855007198 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 471855007199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 471855007200 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 471855007201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 471855007202 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 471855007203 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 471855007204 Walker A/P-loop; other site 471855007205 ATP binding site [chemical binding]; other site 471855007206 Q-loop/lid; other site 471855007207 ABC transporter signature motif; other site 471855007208 Walker B; other site 471855007209 D-loop; other site 471855007210 H-loop/switch region; other site 471855007211 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 471855007212 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 471855007213 dimer interface [polypeptide binding]; other site 471855007214 conserved gate region; other site 471855007215 putative PBP binding loops; other site 471855007216 ABC-ATPase subunit interface; other site 471855007217 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 471855007218 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 471855007219 dimer interface [polypeptide binding]; other site 471855007220 conserved gate region; other site 471855007221 putative PBP binding loops; other site 471855007222 ABC-ATPase subunit interface; other site 471855007223 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 471855007224 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 471855007225 dimerization interface [polypeptide binding]; other site 471855007226 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 471855007227 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 471855007228 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 471855007229 active site 471855007230 trimer interface [polypeptide binding]; other site 471855007231 substrate binding site [chemical binding]; other site 471855007232 CoA binding site [chemical binding]; other site 471855007233 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 471855007234 putative CoA binding site [chemical binding]; other site 471855007235 putative trimer interface [polypeptide binding]; other site 471855007236 dihydrodipicolinate reductase; Provisional; Region: PRK00048 471855007237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855007238 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 471855007239 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 471855007240 dihydrodipicolinate synthase; Region: dapA; TIGR00674 471855007241 dimer interface [polypeptide binding]; other site 471855007242 active site 471855007243 catalytic residue [active] 471855007244 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 471855007245 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 471855007246 active site 471855007247 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 471855007248 substrate binding site [chemical binding]; other site 471855007249 catalytic residues [active] 471855007250 dimer interface [polypeptide binding]; other site 471855007251 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 471855007252 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 471855007253 metal binding site [ion binding]; metal-binding site 471855007254 dimer interface [polypeptide binding]; other site 471855007255 aspartate aminotransferase; Provisional; Region: PRK05764 471855007256 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 471855007257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 471855007258 homodimer interface [polypeptide binding]; other site 471855007259 catalytic residue [active] 471855007260 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 471855007261 Citrate synthase; Region: Citrate_synt; pfam00285 471855007262 oxalacetate binding site [chemical binding]; other site 471855007263 citrylCoA binding site [chemical binding]; other site 471855007264 coenzyme A binding site [chemical binding]; other site 471855007265 catalytic triad [active] 471855007266 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 471855007267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 471855007268 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 471855007269 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 471855007270 catalytic residue [active] 471855007271 hybrid cluster protein; Provisional; Region: PRK05290 471855007272 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 471855007273 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 471855007274 hybrid metal cluster; other site 471855007275 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 471855007276 Helix-turn-helix domains; Region: HTH; cl00088 471855007277 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 471855007278 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 471855007279 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 471855007280 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 471855007281 Walker A/P-loop; other site 471855007282 ATP binding site [chemical binding]; other site 471855007283 Q-loop/lid; other site 471855007284 ABC transporter signature motif; other site 471855007285 Walker B; other site 471855007286 D-loop; other site 471855007287 H-loop/switch region; other site 471855007288 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 471855007289 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 471855007290 AAA-like domain; Region: AAA_10; pfam12846 471855007291 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855007292 Walker A motif; other site 471855007293 ATP binding site [chemical binding]; other site 471855007294 Walker B motif; other site 471855007295 Clp protease; Region: CLP_protease; pfam00574 471855007296 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 471855007297 oligomer interface [polypeptide binding]; other site 471855007298 active site residues [active] 471855007299 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 471855007300 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 471855007301 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 471855007302 active site 471855007303 substrate binding site [chemical binding]; other site 471855007304 catalytic site [active] 471855007305 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855007306 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855007307 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 471855007308 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 471855007309 ATP-grasp domain; Region: ATP-grasp_4; cl03087 471855007310 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 471855007311 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 471855007312 FeS/SAM binding site; other site 471855007313 ParB-like partition proteins; Region: parB_part; TIGR00180 471855007314 ParB-like nuclease domain; Region: ParBc; cl02129 471855007315 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 471855007316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 471855007317 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 471855007318 Magnesium ion binding site [ion binding]; other site 471855007319 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 471855007320 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 471855007321 G-X-X-G motif; other site 471855007322 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 471855007323 RxxxH motif; other site 471855007324 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 471855007325 Haemolytic domain; Region: Haemolytic; cl00506 471855007326 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 471855007327 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 471855007328 ATP binding site [chemical binding]; other site 471855007329 Mg2+ binding site [ion binding]; other site 471855007330 G-X-G motif; other site 471855007331 Helix-turn-helix domains; Region: HTH; cl00088