-- dump date 20140619_121901 -- class Genbank::misc_feature -- table misc_feature_note -- id note 521045000001 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14088 521045000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 521045000003 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 521045000004 Walker A motif; other site 521045000005 ATP binding site [chemical binding]; other site 521045000006 Walker B motif; other site 521045000007 arginine finger; other site 521045000008 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 521045000009 DnaA box-binding interface [nucleotide binding]; other site 521045000010 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 521045000011 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 521045000012 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 521045000013 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 521045000014 S-adenosylmethionine binding site [chemical binding]; other site 521045000015 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521045000016 active site 521045000017 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 521045000018 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 521045000019 generic binding surface II; other site 521045000020 ssDNA binding site; other site 521045000021 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 521045000022 ATP binding site [chemical binding]; other site 521045000023 putative Mg++ binding site [ion binding]; other site 521045000024 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 521045000025 nucleotide binding region [chemical binding]; other site 521045000026 ATP-binding site [chemical binding]; other site 521045000027 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 521045000028 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 521045000029 S-adenosylmethionine binding site [chemical binding]; other site 521045000030 Uncharacterized conserved protein [Function unknown]; Region: COG1656 521045000031 Protein of unknown function DUF82; Region: DUF82; pfam01927 521045000032 GAF domain; Region: GAF; pfam01590 521045000033 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 521045000034 GAF domain; Region: GAF; cl17456 521045000035 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 521045000036 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 521045000037 putative active site [active] 521045000038 heme pocket [chemical binding]; other site 521045000039 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 521045000040 dimer interface [polypeptide binding]; other site 521045000041 phosphorylation site [posttranslational modification] 521045000042 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 521045000043 ATP binding site [chemical binding]; other site 521045000044 Mg2+ binding site [ion binding]; other site 521045000045 G-X-G motif; other site 521045000046 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 521045000047 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 521045000048 active site 521045000049 phosphorylation site [posttranslational modification] 521045000050 intermolecular recognition site; other site 521045000051 dimerization interface [polypeptide binding]; other site 521045000052 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 521045000053 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 521045000054 active site 521045000055 HIGH motif; other site 521045000056 nucleotide binding site [chemical binding]; other site 521045000057 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 521045000058 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 521045000059 active site 521045000060 KMSKS motif; other site 521045000061 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 521045000062 tRNA binding surface [nucleotide binding]; other site 521045000063 anticodon binding site; other site 521045000064 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 521045000065 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 521045000066 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 521045000067 SLBB domain; Region: SLBB; pfam10531 521045000068 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 521045000069 SLBB domain; Region: SLBB; pfam10531 521045000070 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 521045000071 SLBB domain; Region: SLBB; pfam10531 521045000072 SLBB domain; Region: SLBB; pfam10531 521045000073 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 521045000074 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 521045000075 SLBB domain; Region: SLBB; pfam10531 521045000076 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 521045000077 SLBB domain; Region: SLBB; pfam10531 521045000078 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 521045000079 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 521045000080 Chain length determinant protein; Region: Wzz; pfam02706 521045000081 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 521045000082 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 521045000083 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 521045000084 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 521045000085 ZIP Zinc transporter; Region: Zip; pfam02535 521045000086 O-Antigen ligase; Region: Wzy_C; pfam04932 521045000087 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 521045000088 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 521045000089 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 521045000090 active site 521045000091 HIGH motif; other site 521045000092 KMSKS motif; other site 521045000093 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 521045000094 anticodon binding site; other site 521045000095 tRNA binding surface [nucleotide binding]; other site 521045000096 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 521045000097 dimer interface [polypeptide binding]; other site 521045000098 putative tRNA-binding site [nucleotide binding]; other site 521045000099 DNA gyrase subunit A; Validated; Region: PRK05560 521045000100 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 521045000101 CAP-like domain; other site 521045000102 active site 521045000103 primary dimer interface [polypeptide binding]; other site 521045000104 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 521045000105 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 521045000106 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 521045000107 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 521045000108 LexA repressor; Validated; Region: PRK00215 521045000109 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 521045000110 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 521045000111 Catalytic site [active] 521045000112 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 521045000113 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 521045000114 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 521045000115 active site 521045000116 Zn binding site [ion binding]; other site 521045000117 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 521045000118 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 521045000119 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 521045000120 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 521045000121 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 521045000122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 521045000123 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 521045000124 ATP binding site [chemical binding]; other site 521045000125 Mg2+ binding site [ion binding]; other site 521045000126 G-X-G motif; other site 521045000127 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 521045000128 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 521045000129 active site 521045000130 DRTGG domain; Region: DRTGG; pfam07085 521045000131 FOG: CBS domain [General function prediction only]; Region: COG0517 521045000132 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 521045000133 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 521045000134 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 521045000135 ATP binding site [chemical binding]; other site 521045000136 Mg2+ binding site [ion binding]; other site 521045000137 G-X-G motif; other site 521045000138 DRTGG domain; Region: DRTGG; pfam07085 521045000139 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 521045000140 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 521045000141 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 521045000142 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 521045000143 Glucose inhibited division protein A; Region: GIDA; pfam01134 521045000144 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 521045000145 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 521045000146 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 521045000147 minor groove reading motif; other site 521045000148 helix-hairpin-helix signature motif; other site 521045000149 substrate binding pocket [chemical binding]; other site 521045000150 active site 521045000151 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 521045000152 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 521045000153 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 521045000154 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 521045000155 Helix-hairpin-helix motif; Region: HHH; pfam00633 521045000156 active site 521045000157 NAD binding site [chemical binding]; other site 521045000158 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 521045000159 metal binding site [ion binding]; metal-binding site 521045000160 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 521045000161 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 521045000162 oligomer interface [polypeptide binding]; other site 521045000163 active site 521045000164 metal binding site [ion binding]; metal-binding site 521045000165 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 521045000166 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 521045000167 oligomer interface [polypeptide binding]; other site 521045000168 active site 521045000169 metal binding site [ion binding]; metal-binding site 521045000170 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 521045000171 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 521045000172 oligomer interface [polypeptide binding]; other site 521045000173 active site 521045000174 metal binding site [ion binding]; metal-binding site 521045000175 septum formation inhibitor; Provisional; Region: minC; PRK13992 521045000176 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 521045000177 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 521045000178 HTH domain; Region: HTH_11; pfam08279 521045000179 3H domain; Region: 3H; pfam02829 521045000180 benzoate transport; Region: 2A0115; TIGR00895 521045000181 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 521045000182 putative substrate translocation pore; other site 521045000183 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 521045000184 Uncharacterized conserved protein [Function unknown]; Region: COG1751 521045000185 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 521045000186 phosphopentomutase; Provisional; Region: PRK05362 521045000187 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 521045000188 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 521045000189 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 521045000190 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 521045000191 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 521045000192 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 521045000193 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 521045000194 active site 521045000195 substrate binding site [chemical binding]; other site 521045000196 metal binding site [ion binding]; metal-binding site 521045000197 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 521045000198 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 521045000199 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 521045000200 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 521045000201 putative active site [active] 521045000202 heme pocket [chemical binding]; other site 521045000203 PAS domain; Region: PAS; smart00091 521045000204 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 521045000205 Walker A motif; other site 521045000206 ATP binding site [chemical binding]; other site 521045000207 Walker B motif; other site 521045000208 arginine finger; other site 521045000209 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 521045000210 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 521045000211 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 521045000212 homotetramer interface [polypeptide binding]; other site 521045000213 NAD(P) binding site [chemical binding]; other site 521045000214 homodimer interface [polypeptide binding]; other site 521045000215 active site 521045000216 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 521045000217 Uncharacterized conserved protein [Function unknown]; Region: COG1479 521045000218 Protein of unknown function DUF262; Region: DUF262; pfam03235 521045000219 Uncharacterized conserved protein [Function unknown]; Region: COG3472 521045000220 HNH endonuclease; Region: HNH_2; pfam13391 521045000221 transposase; Provisional; Region: PRK06526 521045000222 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 521045000223 Walker A motif; other site 521045000224 ATP binding site [chemical binding]; other site 521045000225 Walker B motif; other site 521045000226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045000227 Integrase core domain; Region: rve; pfam00665 521045000228 Transposase, Mutator family; Region: Transposase_mut; pfam00872 521045000229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 521045000230 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 521045000231 ATP binding site [chemical binding]; other site 521045000232 putative Mg++ binding site [ion binding]; other site 521045000233 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 521045000234 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 521045000235 DNA methylase; Region: N6_N4_Mtase; pfam01555 521045000236 DNA methylase; Region: N6_N4_Mtase; pfam01555 521045000237 Helix-turn-helix domain; Region: HTH_17; pfam12728 521045000238 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 521045000239 transposase/IS protein; Provisional; Region: PRK09183 521045000240 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 521045000241 Walker A motif; other site 521045000242 ATP binding site [chemical binding]; other site 521045000243 Walker B motif; other site 521045000244 arginine finger; other site 521045000245 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045000246 Integrase core domain; Region: rve; pfam00665 521045000247 Protein of unknown function (DUF511); Region: DUF511; cl01114 521045000248 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 521045000249 AAA domain; Region: AAA_14; pfam13173 521045000250 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 521045000251 Transposase; Region: HTH_Tnp_1; pfam01527 521045000252 AAA domain; Region: AAA_22; pfam13401 521045000253 AAA domain; Region: AAA_14; pfam13173 521045000254 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 521045000255 HTH domain; Region: HTH_22; pfam13309 521045000256 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 521045000257 AAA domain; Region: AAA_14; pfam13173 521045000258 Pleckstrin homology-like domain; Region: PH-like; cl17171 521045000259 AAA domain; Region: AAA_14; pfam13173 521045000260 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 521045000261 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 521045000262 zinc binding site [ion binding]; other site 521045000263 putative ligand binding site [chemical binding]; other site 521045000264 CoA-transferase family III; Region: CoA_transf_3; pfam02515 521045000265 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045000266 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 521045000267 TM-ABC transporter signature motif; other site 521045000268 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 521045000269 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 521045000270 Walker A/P-loop; other site 521045000271 ATP binding site [chemical binding]; other site 521045000272 Q-loop/lid; other site 521045000273 ABC transporter signature motif; other site 521045000274 Walker B; other site 521045000275 D-loop; other site 521045000276 H-loop/switch region; other site 521045000277 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 521045000278 non-specific DNA binding site [nucleotide binding]; other site 521045000279 salt bridge; other site 521045000280 sequence-specific DNA binding site [nucleotide binding]; other site 521045000281 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 521045000282 salt bridge; other site 521045000283 non-specific DNA binding site [nucleotide binding]; other site 521045000284 sequence-specific DNA binding site [nucleotide binding]; other site 521045000285 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 521045000286 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 521045000287 homodimer interface [polypeptide binding]; other site 521045000288 substrate-cofactor binding pocket; other site 521045000289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045000290 catalytic residue [active] 521045000291 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 521045000292 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 521045000293 active site 521045000294 metal binding site [ion binding]; metal-binding site 521045000295 homotetramer interface [polypeptide binding]; other site 521045000296 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 521045000297 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 521045000298 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 521045000299 argininosuccinate synthase; Provisional; Region: PRK13820 521045000300 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 521045000301 ANP binding site [chemical binding]; other site 521045000302 Substrate Binding Site II [chemical binding]; other site 521045000303 Substrate Binding Site I [chemical binding]; other site 521045000304 Lyase; Region: Lyase_1; pfam00206 521045000305 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 521045000306 active sites [active] 521045000307 tetramer interface [polypeptide binding]; other site 521045000308 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 521045000309 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 521045000310 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 521045000311 heterotetramer interface [polypeptide binding]; other site 521045000312 active site pocket [active] 521045000313 cleavage site 521045000314 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 521045000315 feedback inhibition sensing region; other site 521045000316 homohexameric interface [polypeptide binding]; other site 521045000317 nucleotide binding site [chemical binding]; other site 521045000318 N-acetyl-L-glutamate binding site [chemical binding]; other site 521045000319 acetylornithine aminotransferase; Provisional; Region: PRK02627 521045000320 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 521045000321 inhibitor-cofactor binding pocket; inhibition site 521045000322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045000323 catalytic residue [active] 521045000324 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045000325 Zn2+ binding site [ion binding]; other site 521045000326 Mg2+ binding site [ion binding]; other site 521045000327 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 521045000328 Transposase, Mutator family; Region: Transposase_mut; pfam00872 521045000329 MULE transposase domain; Region: MULE; pfam10551 521045000330 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 521045000331 Rubredoxin; Region: Rubredoxin; pfam00301 521045000332 iron binding site [ion binding]; other site 521045000333 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 521045000334 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 521045000335 inhibitor-cofactor binding pocket; inhibition site 521045000336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045000337 catalytic residue [active] 521045000338 aspartate kinase; Reviewed; Region: PRK06635 521045000339 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 521045000340 putative nucleotide binding site [chemical binding]; other site 521045000341 putative catalytic residues [active] 521045000342 putative Mg ion binding site [ion binding]; other site 521045000343 putative aspartate binding site [chemical binding]; other site 521045000344 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 521045000345 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 521045000346 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 521045000347 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 521045000348 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 521045000349 active site 521045000350 trimer interface [polypeptide binding]; other site 521045000351 substrate binding site [chemical binding]; other site 521045000352 CoA binding site [chemical binding]; other site 521045000353 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 521045000354 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 521045000355 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 521045000356 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 521045000357 dihydrodipicolinate synthase; Region: dapA; TIGR00674 521045000358 dimer interface [polypeptide binding]; other site 521045000359 active site 521045000360 catalytic residue [active] 521045000361 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 521045000362 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 521045000363 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 521045000364 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 521045000365 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 521045000366 DNA-binding site [nucleotide binding]; DNA binding site 521045000367 RNA-binding motif; other site 521045000368 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 521045000369 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 521045000370 dimer interface [polypeptide binding]; other site 521045000371 phosphorylation site [posttranslational modification] 521045000372 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 521045000373 ATP binding site [chemical binding]; other site 521045000374 Mg2+ binding site [ion binding]; other site 521045000375 G-X-G motif; other site 521045000376 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 521045000377 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 521045000378 active site 521045000379 phosphorylation site [posttranslational modification] 521045000380 intermolecular recognition site; other site 521045000381 dimerization interface [polypeptide binding]; other site 521045000382 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045000383 Zn2+ binding site [ion binding]; other site 521045000384 Mg2+ binding site [ion binding]; other site 521045000385 DNA methylase; Region: N6_N4_Mtase; cl17433 521045000386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 521045000387 Transposase; Region: HTH_Tnp_1; cl17663 521045000388 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 521045000389 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 521045000390 Methyltransferase domain; Region: Methyltransf_26; pfam13659 521045000391 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 521045000392 Domain of unknown function (DUF202); Region: DUF202; pfam02656 521045000393 Spore germination protein; Region: Spore_permease; cl17796 521045000394 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 521045000395 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 521045000396 Ligand Binding Site [chemical binding]; other site 521045000397 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 521045000398 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 521045000399 substrate binding pocket [chemical binding]; other site 521045000400 membrane-bound complex binding site; other site 521045000401 hinge residues; other site 521045000402 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 521045000403 dimer interface [polypeptide binding]; other site 521045000404 conserved gate region; other site 521045000405 putative PBP binding loops; other site 521045000406 ABC-ATPase subunit interface; other site 521045000407 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 521045000408 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 521045000409 Walker A/P-loop; other site 521045000410 ATP binding site [chemical binding]; other site 521045000411 Q-loop/lid; other site 521045000412 ABC transporter signature motif; other site 521045000413 Walker B; other site 521045000414 D-loop; other site 521045000415 H-loop/switch region; other site 521045000416 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 521045000417 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 521045000418 dimer interface [polypeptide binding]; other site 521045000419 conserved gate region; other site 521045000420 putative PBP binding loops; other site 521045000421 ABC-ATPase subunit interface; other site 521045000422 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 521045000423 active sites [active] 521045000424 tetramer interface [polypeptide binding]; other site 521045000425 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 521045000426 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 521045000427 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 521045000428 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 521045000429 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045000430 putative substrate translocation pore; other site 521045000431 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 521045000432 Ion channel; Region: Ion_trans_2; pfam07885 521045000433 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 521045000434 TrkA-N domain; Region: TrkA_N; pfam02254 521045000435 TrkA-C domain; Region: TrkA_C; pfam02080 521045000436 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 521045000437 Part of AAA domain; Region: AAA_19; pfam13245 521045000438 Family description; Region: UvrD_C_2; pfam13538 521045000439 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 521045000440 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 521045000441 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 521045000442 generic binding surface II; other site 521045000443 generic binding surface I; other site 521045000444 OB-fold nucleic acid binding domain; Region: tRNA_anti; pfam01336 521045000445 Staphylococcal nuclease homologues; Region: SNc; smart00318 521045000446 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 521045000447 Catalytic site; other site 521045000448 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521045000449 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521045000450 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 521045000451 GIY-YIG motif/motif A; other site 521045000452 putative active site [active] 521045000453 putative metal binding site [ion binding]; other site 521045000454 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 521045000455 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 521045000456 putative active site [active] 521045000457 putative NTP binding site [chemical binding]; other site 521045000458 putative nucleic acid binding site [nucleotide binding]; other site 521045000459 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 521045000460 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 521045000461 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 521045000462 Ferritin-like domain; Region: Ferritin; pfam00210 521045000463 ferroxidase diiron center [ion binding]; other site 521045000464 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 521045000465 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 521045000466 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 521045000467 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 521045000468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045000469 homodimer interface [polypeptide binding]; other site 521045000470 catalytic residue [active] 521045000471 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 521045000472 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 521045000473 dimer interface [polypeptide binding]; other site 521045000474 putative PBP binding regions; other site 521045000475 ABC-ATPase subunit interface; other site 521045000476 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 521045000477 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 521045000478 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 521045000479 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 521045000480 intersubunit interface [polypeptide binding]; other site 521045000481 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 521045000482 metal binding site 2 [ion binding]; metal-binding site 521045000483 putative DNA binding helix; other site 521045000484 metal binding site 1 [ion binding]; metal-binding site 521045000485 dimer interface [polypeptide binding]; other site 521045000486 structural Zn2+ binding site [ion binding]; other site 521045000487 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 521045000488 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521045000489 Walker A/P-loop; other site 521045000490 ATP binding site [chemical binding]; other site 521045000491 Q-loop/lid; other site 521045000492 ABC transporter signature motif; other site 521045000493 Walker B; other site 521045000494 D-loop; other site 521045000495 H-loop/switch region; other site 521045000496 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 521045000497 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521045000498 Walker A/P-loop; other site 521045000499 ATP binding site [chemical binding]; other site 521045000500 Q-loop/lid; other site 521045000501 ABC transporter signature motif; other site 521045000502 Walker B; other site 521045000503 D-loop; other site 521045000504 H-loop/switch region; other site 521045000505 Predicted transcriptional regulators [Transcription]; Region: COG1725 521045000506 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 521045000507 DNA-binding site [nucleotide binding]; DNA binding site 521045000508 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 521045000509 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 521045000510 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; cd00368 521045000511 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 521045000512 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 521045000513 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 521045000514 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 521045000515 NAD binding site [chemical binding]; other site 521045000516 hydroxyglutarate oxidase; Provisional; Region: PRK11728 521045000517 Predicted dehydrogenase [General function prediction only]; Region: COG0579 521045000518 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 521045000519 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 521045000520 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 521045000521 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 521045000522 BtpA family; Region: BtpA; cl00440 521045000523 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 521045000524 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 521045000525 putative active site [active] 521045000526 putative xylulose binding site [chemical binding]; other site 521045000527 N- and C-terminal domain interface [polypeptide binding]; other site 521045000528 MgATP binding site [chemical binding]; other site 521045000529 putative homodimer interface [polypeptide binding]; other site 521045000530 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 521045000531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 521045000532 NAD(P) binding site [chemical binding]; other site 521045000533 active site 521045000534 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045000535 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 521045000536 dimer interface [polypeptide binding]; other site 521045000537 conserved gate region; other site 521045000538 putative PBP binding loops; other site 521045000539 ABC-ATPase subunit interface; other site 521045000540 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045000541 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045000542 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045000543 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 521045000544 dimer interface [polypeptide binding]; other site 521045000545 conserved gate region; other site 521045000546 putative PBP binding loops; other site 521045000547 ABC-ATPase subunit interface; other site 521045000548 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 521045000549 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 521045000550 active site 521045000551 dimerization interface [polypeptide binding]; other site 521045000552 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 521045000553 Bacterial Ig-like domain; Region: Big_5; pfam13205 521045000554 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 521045000555 putative active site [active] 521045000556 putative metal binding site [ion binding]; other site 521045000557 Bacterial sugar transferase; Region: Bac_transf; pfam02397 521045000558 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 521045000559 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 521045000560 catalytic loop [active] 521045000561 iron binding site [ion binding]; other site 521045000562 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 521045000563 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 521045000564 4Fe-4S binding domain; Region: Fer4; pfam00037 521045000565 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 521045000566 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 521045000567 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 521045000568 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 521045000569 HIGH motif; other site 521045000570 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 521045000571 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 521045000572 active site 521045000573 KMSKS motif; other site 521045000574 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 521045000575 tRNA binding surface [nucleotide binding]; other site 521045000576 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045000577 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045000578 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521045000579 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 521045000580 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 521045000581 CoA-binding site [chemical binding]; other site 521045000582 ATP-binding [chemical binding]; other site 521045000583 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 521045000584 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 521045000585 active site 521045000586 dimer interface [polypeptide binding]; other site 521045000587 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 521045000588 dimer interface [polypeptide binding]; other site 521045000589 active site 521045000590 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521045000591 active site 521045000592 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 521045000593 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 521045000594 putative dimer interface [polypeptide binding]; other site 521045000595 [2Fe-2S] cluster binding site [ion binding]; other site 521045000596 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 521045000597 dimer interface [polypeptide binding]; other site 521045000598 [2Fe-2S] cluster binding site [ion binding]; other site 521045000599 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 521045000600 dimer interface [polypeptide binding]; other site 521045000601 [2Fe-2S] cluster binding site [ion binding]; other site 521045000602 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 521045000603 SLBB domain; Region: SLBB; pfam10531 521045000604 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 521045000605 4Fe-4S binding domain; Region: Fer4; pfam00037 521045000606 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 521045000607 4Fe-4S binding domain; Region: Fer4; pfam00037 521045000608 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 521045000609 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 521045000610 putative dimer interface [polypeptide binding]; other site 521045000611 [2Fe-2S] cluster binding site [ion binding]; other site 521045000612 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 521045000613 dimer interface [polypeptide binding]; other site 521045000614 [2Fe-2S] cluster binding site [ion binding]; other site 521045000615 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 521045000616 SLBB domain; Region: SLBB; pfam10531 521045000617 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 521045000618 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 521045000619 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 521045000620 N-acetyl-D-glucosamine binding site [chemical binding]; other site 521045000621 catalytic residue [active] 521045000622 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 521045000623 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 521045000624 active site 521045000625 homodimer interface [polypeptide binding]; other site 521045000626 catalytic site [active] 521045000627 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 521045000628 EamA-like transporter family; Region: EamA; pfam00892 521045000629 EamA-like transporter family; Region: EamA; pfam00892 521045000630 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 521045000631 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 521045000632 DNA binding site [nucleotide binding] 521045000633 active site 521045000634 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 521045000635 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 521045000636 Walker A/P-loop; other site 521045000637 ATP binding site [chemical binding]; other site 521045000638 Q-loop/lid; other site 521045000639 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 521045000640 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 521045000641 ABC transporter signature motif; other site 521045000642 Walker B; other site 521045000643 D-loop; other site 521045000644 H-loop/switch region; other site 521045000645 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 521045000646 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 521045000647 FeS/SAM binding site; other site 521045000648 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 521045000649 LVIVD repeat; Region: LVIVD; pfam08309 521045000650 LVIVD repeat; Region: LVIVD; pfam08309 521045000651 LVIVD repeat; Region: LVIVD; pfam08309 521045000652 LVIVD repeat; Region: LVIVD; pfam08309 521045000653 LVIVD repeat; Region: LVIVD; pfam08309 521045000654 LVIVD repeat; Region: LVIVD; pfam08309 521045000655 LVIVD repeat; Region: LVIVD; pfam08309 521045000656 LVIVD repeat; Region: LVIVD; pfam08309 521045000657 LVIVD repeat; Region: LVIVD; pfam08309 521045000658 LVIVD repeat; Region: LVIVD; pfam08309 521045000659 LVIVD repeat; Region: LVIVD; pfam08309 521045000660 LVIVD repeat; Region: LVIVD; pfam08309 521045000661 LVIVD repeat; Region: LVIVD; pfam08309 521045000662 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 521045000663 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 521045000664 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 521045000665 CCC1-related family of proteins; Region: CCC1_like; cl00278 521045000666 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 521045000667 ADP-ribose binding site [chemical binding]; other site 521045000668 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 521045000669 recombination factor protein RarA; Reviewed; Region: PRK13342 521045000670 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 521045000671 Walker A motif; other site 521045000672 ATP binding site [chemical binding]; other site 521045000673 Walker B motif; other site 521045000674 arginine finger; other site 521045000675 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 521045000676 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 521045000677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 521045000678 NAD(P) binding site [chemical binding]; other site 521045000679 active site 521045000680 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 521045000681 Fe-S cluster binding site [ion binding]; other site 521045000682 active site 521045000683 Predicted permeases [General function prediction only]; Region: COG0795 521045000684 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 521045000685 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 521045000686 PhoU domain; Region: PhoU; pfam01895 521045000687 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 521045000688 ATP-NAD kinase; Region: NAD_kinase; pfam01513 521045000689 YGGT family; Region: YGGT; pfam02325 521045000690 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 521045000691 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 521045000692 Walker A motif; other site 521045000693 ATP binding site [chemical binding]; other site 521045000694 Walker B motif; other site 521045000695 arginine finger; other site 521045000696 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 521045000697 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 521045000698 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 521045000699 Dimer interface [polypeptide binding]; other site 521045000700 anticodon binding site; other site 521045000701 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 521045000702 homodimer interface [polypeptide binding]; other site 521045000703 motif 1; other site 521045000704 motif 2; other site 521045000705 active site 521045000706 motif 3; other site 521045000707 S-layer homology domain; Region: SLH; pfam00395 521045000708 Violaxanthin de-epoxidase (VDE); Region: VDE; cl06253 521045000709 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 521045000710 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 521045000711 dimer interface [polypeptide binding]; other site 521045000712 anticodon binding site; other site 521045000713 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 521045000714 homodimer interface [polypeptide binding]; other site 521045000715 motif 1; other site 521045000716 active site 521045000717 motif 2; other site 521045000718 GAD domain; Region: GAD; pfam02938 521045000719 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 521045000720 motif 3; other site 521045000721 cytidylate kinase; Provisional; Region: cmk; PRK00023 521045000722 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 521045000723 CMP-binding site; other site 521045000724 The sites determining sugar specificity; other site 521045000725 LytB protein; Region: LYTB; cl00507 521045000726 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 521045000727 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 521045000728 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; cd00164 521045000729 RNA binding site [nucleotide binding]; other site 521045000730 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 521045000731 RNA binding site [nucleotide binding]; other site 521045000732 S1 RNA binding domain; Region: S1; pfam00575 521045000733 RNA binding site [nucleotide binding]; other site 521045000734 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 521045000735 RNA binding site [nucleotide binding]; other site 521045000736 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 521045000737 RNA binding site [nucleotide binding]; other site 521045000738 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 521045000739 RNA binding site [nucleotide binding]; other site 521045000740 GTP-binding protein Der; Reviewed; Region: PRK00093 521045000741 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 521045000742 G1 box; other site 521045000743 GTP/Mg2+ binding site [chemical binding]; other site 521045000744 Switch I region; other site 521045000745 G2 box; other site 521045000746 Switch II region; other site 521045000747 G3 box; other site 521045000748 G4 box; other site 521045000749 G5 box; other site 521045000750 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 521045000751 G1 box; other site 521045000752 GTP/Mg2+ binding site [chemical binding]; other site 521045000753 Switch I region; other site 521045000754 G2 box; other site 521045000755 G3 box; other site 521045000756 Switch II region; other site 521045000757 G4 box; other site 521045000758 G5 box; other site 521045000759 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 521045000760 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 521045000761 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 521045000762 gamma subunit interface [polypeptide binding]; other site 521045000763 epsilon subunit interface [polypeptide binding]; other site 521045000764 LBP interface [polypeptide binding]; other site 521045000765 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 521045000766 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 521045000767 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 521045000768 alpha subunit interaction interface [polypeptide binding]; other site 521045000769 Walker A motif; other site 521045000770 ATP binding site [chemical binding]; other site 521045000771 Walker B motif; other site 521045000772 inhibitor binding site; inhibition site 521045000773 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 521045000774 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 521045000775 core domain interface [polypeptide binding]; other site 521045000776 delta subunit interface [polypeptide binding]; other site 521045000777 epsilon subunit interface [polypeptide binding]; other site 521045000778 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 521045000779 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 521045000780 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 521045000781 beta subunit interaction interface [polypeptide binding]; other site 521045000782 Walker A motif; other site 521045000783 ATP binding site [chemical binding]; other site 521045000784 Walker B motif; other site 521045000785 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 521045000786 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 521045000787 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 521045000788 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 521045000789 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 521045000790 F0F1 ATP synthase subunit C; Provisional; Region: PRK13471 521045000791 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 521045000792 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 521045000793 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 521045000794 DNA polymerase I; Provisional; Region: PRK05755 521045000795 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 521045000796 active site 521045000797 metal binding site 1 [ion binding]; metal-binding site 521045000798 putative 5' ssDNA interaction site; other site 521045000799 metal binding site 3; metal-binding site 521045000800 metal binding site 2 [ion binding]; metal-binding site 521045000801 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 521045000802 putative DNA binding site [nucleotide binding]; other site 521045000803 putative metal binding site [ion binding]; other site 521045000804 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 521045000805 active site 521045000806 catalytic site [active] 521045000807 substrate binding site [chemical binding]; other site 521045000808 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 521045000809 active site 521045000810 DNA binding site [nucleotide binding] 521045000811 catalytic site [active] 521045000812 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 521045000813 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 521045000814 active site 521045000815 GTP-binding protein YchF; Reviewed; Region: PRK09601 521045000816 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 521045000817 G1 box; other site 521045000818 GTP/Mg2+ binding site [chemical binding]; other site 521045000819 G2 box; other site 521045000820 Switch I region; other site 521045000821 G3 box; other site 521045000822 Switch II region; other site 521045000823 G4 box; other site 521045000824 G5 box; other site 521045000825 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 521045000826 AAA domain; Region: AAA_14; pfam13173 521045000827 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 521045000828 Uncharacterized conserved protein [Function unknown]; Region: COG2361 521045000829 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 521045000830 active site 521045000831 NTP binding site [chemical binding]; other site 521045000832 metal binding triad [ion binding]; metal-binding site 521045000833 antibiotic binding site [chemical binding]; other site 521045000834 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 521045000835 active site 521045000836 catalytic site [active] 521045000837 substrate binding site [chemical binding]; other site 521045000838 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 521045000839 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 521045000840 putative active site [active] 521045000841 PhoH-like protein; Region: PhoH; pfam02562 521045000842 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 521045000843 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 521045000844 active site 521045000845 motif I; other site 521045000846 motif II; other site 521045000847 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 521045000848 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 521045000849 active site 521045000850 motif I; other site 521045000851 motif II; other site 521045000852 ribosome biogenesis GTPase YqeH; Region: GTPase_YqeH; TIGR03597 521045000853 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 521045000854 GTP/Mg2+ binding site [chemical binding]; other site 521045000855 G4 box; other site 521045000856 G5 box; other site 521045000857 G1 box; other site 521045000858 Switch I region; other site 521045000859 G2 box; other site 521045000860 G3 box; other site 521045000861 Switch II region; other site 521045000862 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 521045000863 Propanediol utilisation protein PduL; Region: PduL; pfam06130 521045000864 Propanediol utilisation protein PduL; Region: PduL; pfam06130 521045000865 Protein of unknown function DUF72; Region: DUF72; pfam01904 521045000866 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 521045000867 putative homodimer interface [polypeptide binding]; other site 521045000868 putative active site pocket [active] 521045000869 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 521045000870 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 521045000871 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 521045000872 RNA binding site [nucleotide binding]; other site 521045000873 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 521045000874 Zc3h12a-like Ribonuclease NYN domain; Region: RNase_Zc3h12a; pfam11977 521045000875 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 521045000876 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 521045000877 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 521045000878 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 521045000879 Domain of unknown function DUF20; Region: UPF0118; pfam01594 521045000880 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 521045000881 active site 521045000882 homodimer interface [polypeptide binding]; other site 521045000883 homotetramer interface [polypeptide binding]; other site 521045000884 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]; Region: COG1031 521045000885 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 521045000886 FeS/SAM binding site; other site 521045000887 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 521045000888 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 521045000889 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 521045000890 Walker A motif; other site 521045000891 ATP binding site [chemical binding]; other site 521045000892 Walker B motif; other site 521045000893 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 521045000894 UGMP family protein; Validated; Region: PRK09604 521045000895 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 521045000896 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 521045000897 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 521045000898 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 521045000899 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 521045000900 G-X-X-G motif; other site 521045000901 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 521045000902 RxxxH motif; other site 521045000903 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 521045000904 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 521045000905 Haemolytic domain; Region: Haemolytic; pfam01809 521045000906 Ribonuclease P; Region: Ribonuclease_P; pfam00825 521045000907 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 521045000908 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 521045000909 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045000910 Walker A/P-loop; other site 521045000911 ATP binding site [chemical binding]; other site 521045000912 Q-loop/lid; other site 521045000913 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 521045000914 ABC transporter signature motif; other site 521045000915 Walker B; other site 521045000916 D-loop; other site 521045000917 H-loop/switch region; other site 521045000918 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 521045000919 FAD binding domain; Region: FAD_binding_4; pfam01565 521045000920 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 521045000921 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 521045000922 HflK protein; Region: hflK; TIGR01933 521045000923 HflC protein; Region: hflC; TIGR01932 521045000924 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 521045000925 Uncharacterized conserved protein [Function unknown]; Region: COG1739 521045000926 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 521045000927 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_2; cd08769 521045000928 SxDxEG motif; other site 521045000929 putative active site [active] 521045000930 putative metal binding site [ion binding]; other site 521045000931 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 521045000932 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 521045000933 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 521045000934 rod shape-determining protein MreB; Provisional; Region: PRK13930 521045000935 MreB and similar proteins; Region: MreB_like; cd10225 521045000936 nucleotide binding site [chemical binding]; other site 521045000937 Mg binding site [ion binding]; other site 521045000938 putative protofilament interaction site [polypeptide binding]; other site 521045000939 RodZ interaction site [polypeptide binding]; other site 521045000940 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 521045000941 spermidine synthase; Provisional; Region: PRK00811 521045000942 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 521045000943 S-adenosylmethionine binding site [chemical binding]; other site 521045000944 GTP-binding protein LepA; Provisional; Region: PRK05433 521045000945 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 521045000946 G1 box; other site 521045000947 putative GEF interaction site [polypeptide binding]; other site 521045000948 GTP/Mg2+ binding site [chemical binding]; other site 521045000949 Switch I region; other site 521045000950 G2 box; other site 521045000951 G3 box; other site 521045000952 Switch II region; other site 521045000953 G4 box; other site 521045000954 G5 box; other site 521045000955 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 521045000956 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 521045000957 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 521045000958 AP endonuclease family 2; Region: AP2Ec; smart00518 521045000959 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 521045000960 AP (apurinic/apyrimidinic) site pocket; other site 521045000961 DNA interaction; other site 521045000962 Metal-binding active site; metal-binding site 521045000963 CTP synthetase; Validated; Region: pyrG; PRK05380 521045000964 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 521045000965 Catalytic site [active] 521045000966 active site 521045000967 UTP binding site [chemical binding]; other site 521045000968 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 521045000969 active site 521045000970 putative oxyanion hole; other site 521045000971 catalytic triad [active] 521045000972 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 521045000973 dihydropteroate synthase; Region: DHPS; TIGR01496 521045000974 substrate binding pocket [chemical binding]; other site 521045000975 dimer interface [polypeptide binding]; other site 521045000976 inhibitor binding site; inhibition site 521045000977 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 521045000978 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 521045000979 dimer interface [polypeptide binding]; other site 521045000980 conserved gate region; other site 521045000981 putative PBP binding loops; other site 521045000982 ABC-ATPase subunit interface; other site 521045000983 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045000984 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 521045000985 dimer interface [polypeptide binding]; other site 521045000986 conserved gate region; other site 521045000987 putative PBP binding loops; other site 521045000988 ABC-ATPase subunit interface; other site 521045000989 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 521045000990 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 521045000991 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 521045000992 bacterial Hfq-like; Region: Hfq; cd01716 521045000993 hexamer interface [polypeptide binding]; other site 521045000994 Sm1 motif; other site 521045000995 RNA binding site [nucleotide binding]; other site 521045000996 Sm2 motif; other site 521045000997 GTPases [General function prediction only]; Region: HflX; COG2262 521045000998 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 521045000999 HflX GTPase family; Region: HflX; cd01878 521045001000 G1 box; other site 521045001001 GTP/Mg2+ binding site [chemical binding]; other site 521045001002 Switch I region; other site 521045001003 G2 box; other site 521045001004 G3 box; other site 521045001005 Switch II region; other site 521045001006 G4 box; other site 521045001007 G5 box; other site 521045001008 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 521045001009 Peptidase family M23; Region: Peptidase_M23; pfam01551 521045001010 S-adenosylmethionine synthetase; Validated; Region: PRK05250 521045001011 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 521045001012 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 521045001013 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 521045001014 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 521045001015 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 521045001016 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 521045001017 Walker A/P-loop; other site 521045001018 ATP binding site [chemical binding]; other site 521045001019 Q-loop/lid; other site 521045001020 ABC transporter signature motif; other site 521045001021 Walker B; other site 521045001022 D-loop; other site 521045001023 H-loop/switch region; other site 521045001024 TOBE domain; Region: TOBE_2; pfam08402 521045001025 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 521045001026 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 521045001027 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 521045001028 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 521045001029 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 521045001030 substrate binding site [chemical binding]; other site 521045001031 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 521045001032 Radical SAM superfamily; Region: Radical_SAM; pfam04055 521045001033 FeS/SAM binding site; other site 521045001034 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 521045001035 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 521045001036 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 521045001037 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 521045001038 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 521045001039 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 521045001040 putative active site [active] 521045001041 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 521045001042 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 521045001043 ligand binding site [chemical binding]; other site 521045001044 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 521045001045 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 521045001046 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 521045001047 NAD(P) binding site [chemical binding]; other site 521045001048 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521045001049 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose; Region: GT1_Trehalose_phosphorylase; cd03792 521045001050 MarR family; Region: MarR_2; pfam12802 521045001051 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 521045001052 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 521045001053 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045001054 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 521045001055 dimer interface [polypeptide binding]; other site 521045001056 conserved gate region; other site 521045001057 putative PBP binding loops; other site 521045001058 ABC-ATPase subunit interface; other site 521045001059 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 521045001060 dimer interface [polypeptide binding]; other site 521045001061 conserved gate region; other site 521045001062 putative PBP binding loops; other site 521045001063 ABC-ATPase subunit interface; other site 521045001064 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045001065 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045001066 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 521045001067 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 521045001068 Substrate-binding site [chemical binding]; other site 521045001069 Substrate specificity [chemical binding]; other site 521045001070 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 521045001071 dimer interface [polypeptide binding]; other site 521045001072 catalytic triad [active] 521045001073 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 521045001074 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 521045001075 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 521045001076 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 521045001077 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 521045001078 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 521045001079 catalytic residues [active] 521045001080 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 521045001081 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 521045001082 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 521045001083 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 521045001084 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 521045001085 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 521045001086 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 521045001087 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 521045001088 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 521045001089 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 521045001090 dimer interface [polypeptide binding]; other site 521045001091 ssDNA binding site [nucleotide binding]; other site 521045001092 tetramer (dimer of dimers) interface [polypeptide binding]; other site 521045001093 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 521045001094 Uncharacterized conserved protein [Function unknown]; Region: COG1683 521045001095 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 521045001096 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 521045001097 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 521045001098 Peptidase family M23; Region: Peptidase_M23; pfam01551 521045001099 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 521045001100 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 521045001101 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 521045001102 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 521045001103 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 521045001104 TPP-binding site [chemical binding]; other site 521045001105 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 521045001106 catalytic motif [active] 521045001107 Zn binding site [ion binding]; other site 521045001108 Uncharacterized conserved protein [Function unknown]; Region: COG1633 521045001109 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 521045001110 diiron binding motif [ion binding]; other site 521045001111 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 521045001112 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 521045001113 FeS/SAM binding site; other site 521045001114 HemN C-terminal domain; Region: HemN_C; pfam06969 521045001115 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 521045001116 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 521045001117 GatB domain; Region: GatB_Yqey; smart00845 521045001118 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 521045001119 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 521045001120 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 521045001121 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 521045001122 S-adenosylmethionine binding site [chemical binding]; other site 521045001123 Protein of unknown function (DUF501); Region: DUF501; pfam04417 521045001124 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 521045001125 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 521045001126 GIY-YIG motif/motif A; other site 521045001127 active site 521045001128 catalytic site [active] 521045001129 putative DNA binding site [nucleotide binding]; other site 521045001130 metal binding site [ion binding]; metal-binding site 521045001131 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 521045001132 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 521045001133 IHF dimer interface [polypeptide binding]; other site 521045001134 IHF - DNA interface [nucleotide binding]; other site 521045001135 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 521045001136 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 521045001137 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; cd01066 521045001138 active site 521045001139 Helix-turn-helix domain; Region: HTH_28; pfam13518 521045001140 putative transposase OrfB; Reviewed; Region: PHA02517 521045001141 Integrase core domain; Region: rve; pfam00665 521045001142 Integrase core domain; Region: rve_3; pfam13683 521045001143 Integrase core domain; Region: rve; pfam00665 521045001144 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 521045001145 Alpha amylase catalytic domain found in maltosyltransferase; Region: AmyAc_MTase_N; cd11335 521045001146 homodimer interface [polypeptide binding]; other site 521045001147 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 521045001148 active site 521045001149 catalytic site [active] 521045001150 maltose binding site 2 [chemical binding]; other site 521045001151 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 521045001152 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 521045001153 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 521045001154 23S rRNA interface [nucleotide binding]; other site 521045001155 L3 interface [polypeptide binding]; other site 521045001156 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 521045001157 DNA primase; Validated; Region: dnaG; PRK05667 521045001158 CHC2 zinc finger; Region: zf-CHC2; pfam01807 521045001159 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 521045001160 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 521045001161 active site 521045001162 metal binding site [ion binding]; metal-binding site 521045001163 interdomain interaction site; other site 521045001164 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 521045001165 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 521045001166 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 521045001167 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 521045001168 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 521045001169 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 521045001170 DNA binding residues [nucleotide binding] 521045001171 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045001172 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 521045001173 Walker A/P-loop; other site 521045001174 ATP binding site [chemical binding]; other site 521045001175 Q-loop/lid; other site 521045001176 ABC transporter signature motif; other site 521045001177 Walker B; other site 521045001178 D-loop; other site 521045001179 H-loop/switch region; other site 521045001180 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 521045001181 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 521045001182 putative substrate binding site [chemical binding]; other site 521045001183 putative ATP binding site [chemical binding]; other site 521045001184 FOG: CBS domain [General function prediction only]; Region: COG0517 521045001185 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 521045001186 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 521045001187 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 521045001188 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 521045001189 FeS/SAM binding site; other site 521045001190 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 521045001191 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 521045001192 homodimer interface [polypeptide binding]; other site 521045001193 substrate-cofactor binding pocket; other site 521045001194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045001195 catalytic residue [active] 521045001196 Protein of unknown function (DUF721); Region: DUF721; pfam05258 521045001197 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 521045001198 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 521045001199 Mg2+ binding site [ion binding]; other site 521045001200 G-X-G motif; other site 521045001201 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 521045001202 anchoring element; other site 521045001203 dimer interface [polypeptide binding]; other site 521045001204 ATP binding site [chemical binding]; other site 521045001205 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 521045001206 active site 521045001207 putative metal-binding site [ion binding]; other site 521045001208 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 521045001209 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 521045001210 Cell division protein FtsA; Region: FtsA; cl17206 521045001211 Cell division protein FtsA; Region: FtsA; pfam14450 521045001212 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 521045001213 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 521045001214 nucleotide binding site [chemical binding]; other site 521045001215 SulA interaction site; other site 521045001216 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 521045001217 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 521045001218 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 521045001219 Walker A motif; other site 521045001220 ATP binding site [chemical binding]; other site 521045001221 Walker B motif; other site 521045001222 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 521045001223 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 521045001224 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 521045001225 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; cd00640 521045001226 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 521045001227 catalytic residue [active] 521045001228 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 521045001229 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 521045001230 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 521045001231 B12 binding site [chemical binding]; other site 521045001232 cobalt ligand [ion binding]; other site 521045001233 BioY family; Region: BioY; pfam02632 521045001234 Uncharacterized conserved protein [Function unknown]; Region: COG0432 521045001235 Integrase core domain; Region: rve; pfam00665 521045001236 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 521045001237 MgtC family; Region: MgtC; pfam02308 521045001238 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 521045001239 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045001240 putative substrate translocation pore; other site 521045001241 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 521045001242 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 521045001243 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 521045001244 FeoA domain; Region: FeoA; pfam04023 521045001245 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 521045001246 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 521045001247 G1 box; other site 521045001248 GTP/Mg2+ binding site [chemical binding]; other site 521045001249 Switch I region; other site 521045001250 G2 box; other site 521045001251 G3 box; other site 521045001252 Switch II region; other site 521045001253 G4 box; other site 521045001254 G5 box; other site 521045001255 Nucleoside recognition; Region: Gate; pfam07670 521045001256 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 521045001257 Nucleoside recognition; Region: Gate; pfam07670 521045001258 Response regulator receiver domain; Region: Response_reg; pfam00072 521045001259 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 521045001260 active site 521045001261 phosphorylation site [posttranslational modification] 521045001262 intermolecular recognition site; other site 521045001263 dimerization interface [polypeptide binding]; other site 521045001264 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 521045001265 TPR motif; other site 521045001266 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 521045001267 TrkA-N domain; Region: TrkA_N; pfam02254 521045001268 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 521045001269 TrkA-N domain; Region: TrkA_N; pfam02254 521045001270 TrkA-C domain; Region: TrkA_C; pfam02080 521045001271 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 521045001272 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 521045001273 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 521045001274 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 521045001275 dimer interface [polypeptide binding]; other site 521045001276 motif 1; other site 521045001277 active site 521045001278 motif 2; other site 521045001279 motif 3; other site 521045001280 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 521045001281 anticodon binding site; other site 521045001282 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 521045001283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 521045001284 Uncharacterized conserved protein [Function unknown]; Region: COG1543 521045001285 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 521045001286 active site 521045001287 substrate binding site [chemical binding]; other site 521045001288 catalytic site [active] 521045001289 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 521045001290 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 521045001291 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 521045001292 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 521045001293 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 521045001294 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 521045001295 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 521045001296 dimer interface [polypeptide binding]; other site 521045001297 PYR/PP interface [polypeptide binding]; other site 521045001298 TPP binding site [chemical binding]; other site 521045001299 substrate binding site [chemical binding]; other site 521045001300 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 521045001301 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 521045001302 TPP-binding site [chemical binding]; other site 521045001303 putative dimer interface [polypeptide binding]; other site 521045001304 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 521045001305 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 521045001306 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 521045001307 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 521045001308 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 521045001309 active site 521045001310 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 521045001311 putative homodimer interface [polypeptide binding]; other site 521045001312 putative homotetramer interface [polypeptide binding]; other site 521045001313 putative allosteric switch controlling residues; other site 521045001314 putative metal binding site [ion binding]; other site 521045001315 putative homodimer-homodimer interface [polypeptide binding]; other site 521045001316 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 521045001317 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 521045001318 S-adenosylmethionine binding site [chemical binding]; other site 521045001319 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 521045001320 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 521045001321 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 521045001322 protein binding site [polypeptide binding]; other site 521045001323 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 521045001324 Catalytic dyad [active] 521045001325 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 521045001326 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 521045001327 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 521045001328 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 521045001329 active site 521045001330 metal binding site [ion binding]; metal-binding site 521045001331 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 521045001332 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 521045001333 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 521045001334 Walker A motif; other site 521045001335 ATP binding site [chemical binding]; other site 521045001336 Walker B motif; other site 521045001337 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 521045001338 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 521045001339 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 521045001340 FeS/SAM binding site; other site 521045001341 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 521045001342 biotin synthase; Provisional; Region: PRK07094 521045001343 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 521045001344 FeS/SAM binding site; other site 521045001345 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 521045001346 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 521045001347 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 521045001348 G1 box; other site 521045001349 GTP/Mg2+ binding site [chemical binding]; other site 521045001350 Switch I region; other site 521045001351 G2 box; other site 521045001352 Switch II region; other site 521045001353 G3 box; other site 521045001354 G4 box; other site 521045001355 G5 box; other site 521045001356 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 521045001357 Aspartase; Region: Aspartase; cd01357 521045001358 active sites [active] 521045001359 tetramer interface [polypeptide binding]; other site 521045001360 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 521045001361 active site 521045001362 dimer interfaces [polypeptide binding]; other site 521045001363 catalytic residues [active] 521045001364 SprT homologues; Region: SprT; cl01182 521045001365 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 521045001366 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 521045001367 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 521045001368 active site 521045001369 Zn binding site [ion binding]; other site 521045001370 4Fe-4S binding domain; Region: Fer4_5; pfam12801 521045001371 4Fe-4S binding domain; Region: Fer4_5; pfam12801 521045001372 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 521045001373 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 521045001374 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 521045001375 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 521045001376 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 521045001377 homodimer interface [polypeptide binding]; other site 521045001378 substrate-cofactor binding pocket; other site 521045001379 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045001380 catalytic residue [active] 521045001381 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR_like; cd08242 521045001382 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 521045001383 putative NAD(P) binding site [chemical binding]; other site 521045001384 catalytic Zn binding site [ion binding]; other site 521045001385 structural Zn binding site [ion binding]; other site 521045001386 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 521045001387 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 521045001388 motif II; other site 521045001389 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 521045001390 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 521045001391 substrate binding site [chemical binding]; other site 521045001392 ATP binding site [chemical binding]; other site 521045001393 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 521045001394 Protein export membrane protein; Region: SecD_SecF; cl14618 521045001395 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 521045001396 beta-galactosidase; Region: BGL; TIGR03356 521045001397 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 521045001398 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 521045001399 4Fe-4S binding domain; Region: Fer4_5; pfam12801 521045001400 4Fe-4S binding domain; Region: Fer4_5; pfam12801 521045001401 Uncharacterized conserved protein [Function unknown]; Region: COG0327 521045001402 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 521045001403 SIR2-like domain; Region: SIR2_2; pfam13289 521045001404 Lamin Tail Domain; Region: LTD; pfam00932 521045001405 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 521045001406 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 521045001407 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 521045001408 metal ion-dependent adhesion site (MIDAS); other site 521045001409 M6 family metalloprotease domain; Region: M6dom_TIGR03296 521045001410 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 521045001411 TPR motif; other site 521045001412 binding surface 521045001413 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 521045001414 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 521045001415 active site 521045001416 metal binding site [ion binding]; metal-binding site 521045001417 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 521045001418 B12 binding site [chemical binding]; other site 521045001419 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 521045001420 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 521045001421 FeS/SAM binding site; other site 521045001422 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 521045001423 EDD domain protein, DegV family; Region: DegV; TIGR00762 521045001424 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 521045001425 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 521045001426 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 521045001427 MoxR-like ATPases [General function prediction only]; Region: COG0714 521045001428 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 521045001429 Walker A motif; other site 521045001430 ATP binding site [chemical binding]; other site 521045001431 Walker B motif; other site 521045001432 arginine finger; other site 521045001433 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 521045001434 Protein of unknown function DUF58; Region: DUF58; pfam01882 521045001435 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 521045001436 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 521045001437 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 521045001438 EDD domain protein, DegV family; Region: DegV; TIGR00762 521045001439 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 521045001440 Chromate transporter; Region: Chromate_transp; pfam02417 521045001441 Chromate transporter; Region: Chromate_transp; pfam02417 521045001442 PRC-barrel domain; Region: PRC; pfam05239 521045001443 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 521045001444 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 521045001445 Walker A/P-loop; other site 521045001446 ATP binding site [chemical binding]; other site 521045001447 Q-loop/lid; other site 521045001448 ABC transporter signature motif; other site 521045001449 Walker B; other site 521045001450 D-loop; other site 521045001451 H-loop/switch region; other site 521045001452 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 521045001453 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 521045001454 FtsX-like permease family; Region: FtsX; pfam02687 521045001455 FtsX-like permease family; Region: FtsX; pfam02687 521045001456 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 521045001457 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 521045001458 active site 521045001459 phosphorylation site [posttranslational modification] 521045001460 intermolecular recognition site; other site 521045001461 dimerization interface [polypeptide binding]; other site 521045001462 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 521045001463 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 521045001464 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 521045001465 anti sigma factor interaction site; other site 521045001466 regulatory phosphorylation site [posttranslational modification]; other site 521045001467 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 521045001468 anti sigma factor interaction site; other site 521045001469 regulatory phosphorylation site [posttranslational modification]; other site 521045001470 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 521045001471 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 521045001472 ATP binding site [chemical binding]; other site 521045001473 Mg2+ binding site [ion binding]; other site 521045001474 G-X-G motif; other site 521045001475 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 521045001476 dimer interface [polypeptide binding]; other site 521045001477 phosphorylation site [posttranslational modification] 521045001478 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 521045001479 ATP binding site [chemical binding]; other site 521045001480 Mg2+ binding site [ion binding]; other site 521045001481 G-X-G motif; other site 521045001482 Response regulator receiver domain; Region: Response_reg; pfam00072 521045001483 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 521045001484 active site 521045001485 phosphorylation site [posttranslational modification] 521045001486 intermolecular recognition site; other site 521045001487 dimerization interface [polypeptide binding]; other site 521045001488 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 521045001489 putative binding surface; other site 521045001490 active site 521045001491 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 521045001492 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 521045001493 urocanate hydratase; Provisional; Region: PRK05414 521045001494 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 521045001495 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 521045001496 substrate binding pocket [chemical binding]; other site 521045001497 membrane-bound complex binding site; other site 521045001498 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 521045001499 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 521045001500 hinge residues; other site 521045001501 PAS domain S-box; Region: sensory_box; TIGR00229 521045001502 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 521045001503 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 521045001504 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 521045001505 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 521045001506 metal binding site [ion binding]; metal-binding site 521045001507 active site 521045001508 I-site; other site 521045001509 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 521045001510 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045001511 Zn2+ binding site [ion binding]; other site 521045001512 Mg2+ binding site [ion binding]; other site 521045001513 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 521045001514 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 521045001515 putative dimer interface [polypeptide binding]; other site 521045001516 active site pocket [active] 521045001517 putative cataytic base [active] 521045001518 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 521045001519 homotrimer interface [polypeptide binding]; other site 521045001520 Walker A motif; other site 521045001521 GTP binding site [chemical binding]; other site 521045001522 Walker B motif; other site 521045001523 cobalamin synthase; Reviewed; Region: cobS; PRK00235 521045001524 Rrf2 family protein; Region: rrf2_super; TIGR00738 521045001525 Transcriptional regulator; Region: Rrf2; pfam02082 521045001526 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 521045001527 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 521045001528 putative substrate translocation pore; other site 521045001529 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045001530 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 521045001531 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 521045001532 active site 521045001533 Substrate binding site; other site 521045001534 Mg++ binding site; other site 521045001535 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 521045001536 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 521045001537 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 521045001538 active site 521045001539 catalytic site [active] 521045001540 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 521045001541 putative ligand binding site [chemical binding]; other site 521045001542 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045001543 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 521045001544 TM-ABC transporter signature motif; other site 521045001545 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045001546 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 521045001547 TM-ABC transporter signature motif; other site 521045001548 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 521045001549 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 521045001550 Walker A/P-loop; other site 521045001551 ATP binding site [chemical binding]; other site 521045001552 Q-loop/lid; other site 521045001553 ABC transporter signature motif; other site 521045001554 Walker B; other site 521045001555 D-loop; other site 521045001556 H-loop/switch region; other site 521045001557 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 521045001558 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 521045001559 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 521045001560 putative ligand binding site [chemical binding]; other site 521045001561 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 521045001562 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521045001563 Walker A/P-loop; other site 521045001564 ATP binding site [chemical binding]; other site 521045001565 Q-loop/lid; other site 521045001566 ABC transporter signature motif; other site 521045001567 Walker B; other site 521045001568 D-loop; other site 521045001569 H-loop/switch region; other site 521045001570 Helicase; Region: Helicase_RecD; pfam05127 521045001571 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 521045001572 FOG: WD40 repeat [General function prediction only]; Region: COG2319 521045001573 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 521045001574 structural tetrad; other site 521045001575 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 521045001576 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 521045001577 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 521045001578 ATP binding site [chemical binding]; other site 521045001579 putative Mg++ binding site [ion binding]; other site 521045001580 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 521045001581 nucleotide binding region [chemical binding]; other site 521045001582 ATP-binding site [chemical binding]; other site 521045001583 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 521045001584 Uncharacterized homolog of biotin synthetase [Function unknown]; Region: COG1856 521045001585 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 521045001586 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 521045001587 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 521045001588 FeS/SAM binding site; other site 521045001589 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 521045001590 alpha-mannosidase; Provisional; Region: PRK09819 521045001591 N-terminal catalytic domain of SPGH38, a putative alpha-mannosidase of Streptococcus pyogenes, and its prokaryotic homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_SpGH38_like; cd10814 521045001592 active site 521045001593 metal binding site [ion binding]; metal-binding site 521045001594 homodimer interface [polypeptide binding]; other site 521045001595 catalytic site [active] 521045001596 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 521045001597 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045001598 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521045001599 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 521045001600 dimer interface [polypeptide binding]; other site 521045001601 conserved gate region; other site 521045001602 putative PBP binding loops; other site 521045001603 ABC-ATPase subunit interface; other site 521045001604 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045001605 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 521045001606 dimer interface [polypeptide binding]; other site 521045001607 conserved gate region; other site 521045001608 putative PBP binding loops; other site 521045001609 ABC-ATPase subunit interface; other site 521045001610 Glycoside hydrolase family 99, an endo-alpha-1,2-mannosidase; Region: GH99; cd11574 521045001611 ligand binding site [chemical binding]; other site 521045001612 putative catalytic site [active] 521045001613 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 521045001614 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 521045001615 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 521045001616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 521045001617 DNA-binding site [nucleotide binding]; DNA binding site 521045001618 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 521045001619 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 521045001620 ligand binding site [chemical binding]; other site 521045001621 dimerization interface [polypeptide binding]; other site 521045001622 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 521045001623 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 521045001624 FMN binding site [chemical binding]; other site 521045001625 substrate binding site [chemical binding]; other site 521045001626 putative catalytic residue [active] 521045001627 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 521045001628 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 521045001629 Malic enzyme, N-terminal domain; Region: malic; pfam00390 521045001630 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 521045001631 putative NAD(P) binding site [chemical binding]; other site 521045001632 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 521045001633 Archaeal ATPase; Region: Arch_ATPase; pfam01637 521045001634 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cd01120 521045001635 Walker A motif; other site 521045001636 ATP binding site [chemical binding]; other site 521045001637 Walker B motif; other site 521045001638 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 521045001639 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521045001640 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521045001641 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 521045001642 MG2 domain; Region: A2M_N; pfam01835 521045001643 Alpha-2-macroglobulin family; Region: A2M; pfam00207 521045001644 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 521045001645 surface patch; other site 521045001646 thioester region; other site 521045001647 specificity defining residues; other site 521045001648 Protein of unknown function (DUF1175); Region: DUF1175; pfam06672 521045001649 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 521045001650 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045001651 Coenzyme A binding pocket [chemical binding]; other site 521045001652 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 521045001653 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045001654 Coenzyme A binding pocket [chemical binding]; other site 521045001655 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 521045001656 H+ Antiporter protein; Region: 2A0121; TIGR00900 521045001657 putative substrate translocation pore; other site 521045001658 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 521045001659 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 521045001660 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 521045001661 dimer interface [polypeptide binding]; other site 521045001662 active site 521045001663 metal binding site [ion binding]; metal-binding site 521045001664 Uncharacterized protein conserved in archaea (DUF2250); Region: DUF2250; pfam10007 521045001665 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 521045001666 DNA binding site [nucleotide binding] 521045001667 sequence specific DNA binding site [nucleotide binding]; other site 521045001668 putative cAMP binding site [chemical binding]; other site 521045001669 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 521045001670 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 521045001671 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 521045001672 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521045001673 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521045001674 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 521045001675 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 521045001676 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521045001677 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521045001678 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 521045001679 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 521045001680 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521045001681 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521045001682 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 521045001683 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 521045001684 ParB-like nuclease domain; Region: ParB; smart00470 521045001685 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 521045001686 E3 Ubiquitin ligase; Region: GIDE; pfam12483 521045001687 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 521045001688 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 521045001689 catalytic core [active] 521045001690 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 521045001691 nudix motif; other site 521045001692 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 521045001693 Melibiase; Region: Melibiase; pfam02065 521045001694 Helix-turn-helix domain; Region: HTH_28; pfam13518 521045001695 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045001696 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 521045001697 DNA-binding interface [nucleotide binding]; DNA binding site 521045001698 Integrase core domain; Region: rve; pfam00665 521045001699 Integrase core domain; Region: rve_3; cl15866 521045001700 transposase/IS protein; Provisional; Region: PRK09183 521045001701 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 521045001702 Walker A motif; other site 521045001703 ATP binding site [chemical binding]; other site 521045001704 Walker B motif; other site 521045001705 arginine finger; other site 521045001706 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 521045001707 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 521045001708 FeS/SAM binding site; other site 521045001709 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 521045001710 ATP cone domain; Region: ATP-cone; pfam03477 521045001711 Class III ribonucleotide reductase; Region: RNR_III; cd01675 521045001712 effector binding site; other site 521045001713 active site 521045001714 Zn binding site [ion binding]; other site 521045001715 glycine loop; other site 521045001716 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 521045001717 active site 521045001718 catalytic site [active] 521045001719 substrate binding site [chemical binding]; other site 521045001720 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 521045001721 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 521045001722 metal binding site [ion binding]; metal-binding site 521045001723 dimer interface [polypeptide binding]; other site 521045001724 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 521045001725 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 521045001726 N- and C-terminal domain interface [polypeptide binding]; other site 521045001727 active site 521045001728 MgATP binding site [chemical binding]; other site 521045001729 catalytic site [active] 521045001730 metal binding site [ion binding]; metal-binding site 521045001731 glycerol binding site [chemical binding]; other site 521045001732 homotetramer interface [polypeptide binding]; other site 521045001733 homodimer interface [polypeptide binding]; other site 521045001734 protein IIAGlc interface [polypeptide binding]; other site 521045001735 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 521045001736 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 521045001737 Found in ATP-dependent protease La (LON); Region: LON; smart00464 521045001738 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 521045001739 Walker A motif; other site 521045001740 ATP binding site [chemical binding]; other site 521045001741 Walker B motif; other site 521045001742 arginine finger; other site 521045001743 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 521045001744 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 521045001745 G1 box; other site 521045001746 GTP/Mg2+ binding site [chemical binding]; other site 521045001747 Switch I region; other site 521045001748 G2 box; other site 521045001749 G3 box; other site 521045001750 Switch II region; other site 521045001751 G4 box; other site 521045001752 G5 box; other site 521045001753 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 521045001754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 521045001755 metal binding site [ion binding]; metal-binding site 521045001756 active site 521045001757 I-site; other site 521045001758 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 521045001759 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 521045001760 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 521045001761 Phosphate transporter family; Region: PHO4; cl00396 521045001762 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 521045001763 nudix motif; other site 521045001764 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 521045001765 30S subunit binding site; other site 521045001766 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 521045001767 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 521045001768 homodimer interface [polypeptide binding]; other site 521045001769 oligonucleotide binding site [chemical binding]; other site 521045001770 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 521045001771 dimerization interface [polypeptide binding]; other site 521045001772 putative DNA binding site [nucleotide binding]; other site 521045001773 putative Zn2+ binding site [ion binding]; other site 521045001774 Predicted permease; Region: DUF318; pfam03773 521045001775 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 521045001776 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 521045001777 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 521045001778 dimerization interface [polypeptide binding]; other site 521045001779 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 521045001780 dimer interface [polypeptide binding]; other site 521045001781 phosphorylation site [posttranslational modification] 521045001782 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 521045001783 ATP binding site [chemical binding]; other site 521045001784 Mg2+ binding site [ion binding]; other site 521045001785 G-X-G motif; other site 521045001786 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 521045001787 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 521045001788 active site 521045001789 phosphorylation site [posttranslational modification] 521045001790 intermolecular recognition site; other site 521045001791 dimerization interface [polypeptide binding]; other site 521045001792 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 521045001793 DNA binding site [nucleotide binding] 521045001794 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 521045001795 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 521045001796 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 521045001797 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 521045001798 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 521045001799 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 521045001800 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 521045001801 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 521045001802 dimerization interface [polypeptide binding]; other site 521045001803 ATP binding site [chemical binding]; other site 521045001804 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 521045001805 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 521045001806 HupF/HypC family; Region: HupF_HypC; pfam01455 521045001807 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 521045001808 Acylphosphatase; Region: Acylphosphatase; pfam00708 521045001809 HypF finger; Region: zf-HYPF; pfam07503 521045001810 HypF finger; Region: zf-HYPF; pfam07503 521045001811 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 521045001812 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 521045001813 nickel binding site [ion binding]; other site 521045001814 4Fe-4S binding domain; Region: Fer4; pfam00037 521045001815 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 521045001816 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 521045001817 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 521045001818 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 521045001819 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 521045001820 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 521045001821 Multisubunit Na+/H+ antiporter, MnhC subunit [Inorganic ion transport and metabolism]; Region: MnhC; COG1006 521045001822 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 521045001823 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 521045001824 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 521045001825 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 521045001826 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 521045001827 NADH dehydrogenase; Region: NADHdh; cl00469 521045001828 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 521045001829 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 521045001830 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 521045001831 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 521045001832 FAD binding pocket [chemical binding]; other site 521045001833 FAD binding motif [chemical binding]; other site 521045001834 phosphate binding motif [ion binding]; other site 521045001835 beta-alpha-beta structure motif; other site 521045001836 NAD binding pocket [chemical binding]; other site 521045001837 Iron coordination center [ion binding]; other site 521045001838 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 521045001839 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 521045001840 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548; Region: HAD-SF-IA-hyp1 521045001841 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 521045001842 motif II; other site 521045001843 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 521045001844 dimerization interface [polypeptide binding]; other site 521045001845 putative DNA binding site [nucleotide binding]; other site 521045001846 putative Zn2+ binding site [ion binding]; other site 521045001847 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 521045001848 dimerization interface [polypeptide binding]; other site 521045001849 putative DNA binding site [nucleotide binding]; other site 521045001850 putative Zn2+ binding site [ion binding]; other site 521045001851 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 521045001852 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 521045001853 substrate binding site [chemical binding]; other site 521045001854 ATP binding site [chemical binding]; other site 521045001855 Acylphosphatase; Region: Acylphosphatase; pfam00708 521045001856 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 521045001857 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 521045001858 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 521045001859 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 521045001860 trimer interface [polypeptide binding]; other site 521045001861 active site 521045001862 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 521045001863 catalytic site [active] 521045001864 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 521045001865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045001866 Walker A/P-loop; other site 521045001867 ATP binding site [chemical binding]; other site 521045001868 Q-loop/lid; other site 521045001869 ABC transporter signature motif; other site 521045001870 Walker B; other site 521045001871 D-loop; other site 521045001872 H-loop/switch region; other site 521045001873 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 521045001874 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 521045001875 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 521045001876 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 521045001877 putative oligomer interface [polypeptide binding]; other site 521045001878 putative active site [active] 521045001879 metal binding site [ion binding]; metal-binding site 521045001880 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 521045001881 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045001882 Zn2+ binding site [ion binding]; other site 521045001883 Mg2+ binding site [ion binding]; other site 521045001884 Response regulator receiver domain; Region: Response_reg; pfam00072 521045001885 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 521045001886 active site 521045001887 phosphorylation site [posttranslational modification] 521045001888 intermolecular recognition site; other site 521045001889 dimerization interface [polypeptide binding]; other site 521045001890 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 521045001891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 521045001892 metal binding site [ion binding]; metal-binding site 521045001893 active site 521045001894 I-site; other site 521045001895 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 521045001896 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 521045001897 active site 521045001898 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 521045001899 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 521045001900 Coenzyme A transferase; Region: CoA_trans; cl17247 521045001901 putative acyltransferase; Provisional; Region: PRK05790 521045001902 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 521045001903 dimer interface [polypeptide binding]; other site 521045001904 active site 521045001905 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 521045001906 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 521045001907 homodimer interface [polypeptide binding]; other site 521045001908 Walker A motif; other site 521045001909 ATP binding site [chemical binding]; other site 521045001910 hydroxycobalamin binding site [chemical binding]; other site 521045001911 Walker B motif; other site 521045001912 D-ribose pyranase; Provisional; Region: PRK11797 521045001913 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 521045001914 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 521045001915 substrate binding site [chemical binding]; other site 521045001916 dimer interface [polypeptide binding]; other site 521045001917 ATP binding site [chemical binding]; other site 521045001918 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 521045001919 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 521045001920 ligand binding site [chemical binding]; other site 521045001921 dimerization interface [polypeptide binding]; other site 521045001922 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045001923 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 521045001924 TM-ABC transporter signature motif; other site 521045001925 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 521045001926 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 521045001927 Walker A/P-loop; other site 521045001928 ATP binding site [chemical binding]; other site 521045001929 Q-loop/lid; other site 521045001930 ABC transporter signature motif; other site 521045001931 Walker B; other site 521045001932 D-loop; other site 521045001933 H-loop/switch region; other site 521045001934 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 521045001935 Transcriptional regulators [Transcription]; Region: PurR; COG1609 521045001936 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 521045001937 DNA binding site [nucleotide binding] 521045001938 domain linker motif; other site 521045001939 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 521045001940 dimerization interface [polypeptide binding]; other site 521045001941 ligand binding site [chemical binding]; other site 521045001942 Uncharacterized protein domain (DUF2202); Region: DUF2202; pfam09968 521045001943 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 521045001944 diiron binding motif [ion binding]; other site 521045001945 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 521045001946 non-specific DNA binding site [nucleotide binding]; other site 521045001947 salt bridge; other site 521045001948 sequence-specific DNA binding site [nucleotide binding]; other site 521045001949 Class I aldolases; Region: Aldolase_Class_I; cl17187 521045001950 catalytic residue [active] 521045001951 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 521045001952 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 521045001953 putative substrate binding site [chemical binding]; other site 521045001954 putative ATP binding site [chemical binding]; other site 521045001955 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 521045001956 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 521045001957 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 521045001958 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045001959 Zn2+ binding site [ion binding]; other site 521045001960 Mg2+ binding site [ion binding]; other site 521045001961 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 521045001962 putative ligand binding site [chemical binding]; other site 521045001963 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 521045001964 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 521045001965 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 521045001966 A new structural DNA glycosylase; Region: AlkD_like; cd06561 521045001967 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 521045001968 active site 521045001969 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 521045001970 catalytic core [active] 521045001971 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 521045001972 FMN binding site [chemical binding]; other site 521045001973 dimer interface [polypeptide binding]; other site 521045001974 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 521045001975 active site 521045001976 Predicted transcriptional regulators [Transcription]; Region: COG1695 521045001977 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 521045001978 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 521045001979 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 521045001980 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 521045001981 acyl-activating enzyme (AAE) consensus motif; other site 521045001982 AMP binding site [chemical binding]; other site 521045001983 active site 521045001984 CoA binding site [chemical binding]; other site 521045001985 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 521045001986 classical (c) SDRs; Region: SDR_c; cd05233 521045001987 NAD(P) binding site [chemical binding]; other site 521045001988 active site 521045001989 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 521045001990 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 521045001991 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 521045001992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 521045001993 Transposase; Region: HTH_Tnp_1; cl17663 521045001994 putative transposase OrfB; Reviewed; Region: PHA02517 521045001995 HTH-like domain; Region: HTH_21; pfam13276 521045001996 Integrase core domain; Region: rve; pfam00665 521045001997 Integrase core domain; Region: rve_3; pfam13683 521045001998 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 521045001999 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 521045002000 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 521045002001 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 521045002002 nucleotide binding site/active site [active] 521045002003 HIT family signature motif; other site 521045002004 catalytic residue [active] 521045002005 Cupin domain; Region: Cupin_2; pfam07883 521045002006 Methyltransferase domain; Region: Methyltransf_23; pfam13489 521045002007 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 521045002008 S-adenosylmethionine binding site [chemical binding]; other site 521045002009 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 521045002010 GTPase RsgA; Reviewed; Region: PRK00098 521045002011 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 521045002012 RNA binding site [nucleotide binding]; other site 521045002013 homodimer interface [polypeptide binding]; other site 521045002014 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 521045002015 GTPase/Zn-binding domain interface [polypeptide binding]; other site 521045002016 GTP/Mg2+ binding site [chemical binding]; other site 521045002017 G4 box; other site 521045002018 G5 box; other site 521045002019 G1 box; other site 521045002020 Switch I region; other site 521045002021 G2 box; other site 521045002022 G3 box; other site 521045002023 Switch II region; other site 521045002024 FMN-binding domain; Region: FMN_bind; cl01081 521045002025 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 521045002026 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 521045002027 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 521045002028 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 521045002029 putative substrate translocation pore; other site 521045002030 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045002031 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 521045002032 active site 521045002033 DNA binding site [nucleotide binding] 521045002034 isoaspartyl dipeptidase; Provisional; Region: PRK10657 521045002035 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 521045002036 active site 521045002037 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 521045002038 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 521045002039 putative active site [active] 521045002040 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 521045002041 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 521045002042 non-specific DNA binding site [nucleotide binding]; other site 521045002043 salt bridge; other site 521045002044 sequence-specific DNA binding site [nucleotide binding]; other site 521045002045 Domain of unknown function (DUF955); Region: DUF955; cl01076 521045002046 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 521045002047 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 521045002048 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 521045002049 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 521045002050 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 521045002051 PrcB C-terminal; Region: PrcB_C; pfam14343 521045002052 Archaeal transcriptional regulator TrmB; Region: Regulator_TrmB; pfam11495 521045002053 Predicted transcriptional regulators [Transcription]; Region: COG1725 521045002054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 521045002055 DNA-binding site [nucleotide binding]; DNA binding site 521045002056 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 521045002057 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521045002058 Walker A/P-loop; other site 521045002059 ATP binding site [chemical binding]; other site 521045002060 Q-loop/lid; other site 521045002061 ABC transporter signature motif; other site 521045002062 Walker B; other site 521045002063 D-loop; other site 521045002064 H-loop/switch region; other site 521045002065 SCP-2 sterol transfer family; Region: SCP2; pfam02036 521045002066 Cupin domain; Region: Cupin_2; pfam07883 521045002067 PAS domain S-box; Region: sensory_box; TIGR00229 521045002068 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 521045002069 putative active site [active] 521045002070 heme pocket [chemical binding]; other site 521045002071 PAS fold; Region: PAS_4; pfam08448 521045002072 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 521045002073 GAF domain; Region: GAF; pfam01590 521045002074 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 521045002075 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 521045002076 metal binding site [ion binding]; metal-binding site 521045002077 active site 521045002078 I-site; other site 521045002079 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 521045002080 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 521045002081 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 521045002082 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09701 521045002083 CRISPR-associated protein, Csx11 family; Region: cas_csx11; TIGR02682 521045002084 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 521045002085 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 521045002086 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 521045002087 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 521045002088 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 521045002089 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 521045002090 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 521045002091 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 521045002092 Family of unknown function (DUF694); Region: DUF694; pfam05107 521045002093 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 521045002094 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 521045002095 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 521045002096 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 521045002097 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 521045002098 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 521045002099 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 521045002100 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 521045002101 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045002102 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045002103 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045002104 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 521045002105 dimer interface [polypeptide binding]; other site 521045002106 conserved gate region; other site 521045002107 putative PBP binding loops; other site 521045002108 ABC-ATPase subunit interface; other site 521045002109 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 521045002110 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 521045002111 dimer interface [polypeptide binding]; other site 521045002112 putative PBP binding loops; other site 521045002113 ABC-ATPase subunit interface; other site 521045002114 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 521045002115 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 521045002116 metal binding site [ion binding]; metal-binding site 521045002117 substrate binding pocket [chemical binding]; other site 521045002118 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 521045002119 phosphate binding site [ion binding]; other site 521045002120 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 521045002121 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 521045002122 inhibitor site; inhibition site 521045002123 active site 521045002124 dimer interface [polypeptide binding]; other site 521045002125 catalytic residue [active] 521045002126 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 521045002127 putative DNA binding site [nucleotide binding]; other site 521045002128 putative Zn2+ binding site [ion binding]; other site 521045002129 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 521045002130 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 521045002131 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 521045002132 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 521045002133 dimer interface [polypeptide binding]; other site 521045002134 active site 521045002135 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 521045002136 dimer interface [polypeptide binding]; other site 521045002137 active site 521045002138 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 521045002139 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 521045002140 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 521045002141 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 521045002142 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_4; cd09619 521045002143 putative ligand binding site [chemical binding]; other site 521045002144 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045002145 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 521045002146 dimer interface [polypeptide binding]; other site 521045002147 conserved gate region; other site 521045002148 putative PBP binding loops; other site 521045002149 ABC-ATPase subunit interface; other site 521045002150 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 521045002151 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 521045002152 dimer interface [polypeptide binding]; other site 521045002153 conserved gate region; other site 521045002154 putative PBP binding loops; other site 521045002155 ABC-ATPase subunit interface; other site 521045002156 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045002157 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045002158 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 521045002159 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 521045002160 putative DNA binding site [nucleotide binding]; other site 521045002161 putative Zn2+ binding site [ion binding]; other site 521045002162 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 521045002163 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 521045002164 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 521045002165 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 521045002166 catalytic residue [active] 521045002167 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 521045002168 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 521045002169 putative substrate translocation pore; other site 521045002170 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045002171 MOSC domain; Region: MOSC; pfam03473 521045002172 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 521045002173 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 521045002174 dimer interface [polypeptide binding]; other site 521045002175 putative functional site; other site 521045002176 putative MPT binding site; other site 521045002177 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521045002178 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 521045002179 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 521045002180 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521045002181 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 521045002182 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 521045002183 dimer interface [polypeptide binding]; other site 521045002184 conserved gate region; other site 521045002185 putative PBP binding loops; other site 521045002186 ABC-ATPase subunit interface; other site 521045002187 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 521045002188 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 521045002189 FeS/SAM binding site; other site 521045002190 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 521045002191 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 521045002192 trimer interface [polypeptide binding]; other site 521045002193 dimer interface [polypeptide binding]; other site 521045002194 putative active site [active] 521045002195 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 521045002196 MPT binding site; other site 521045002197 trimer interface [polypeptide binding]; other site 521045002198 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 521045002199 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 521045002200 putative active site [active] 521045002201 heme pocket [chemical binding]; other site 521045002202 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 521045002203 dimer interface [polypeptide binding]; other site 521045002204 phosphorylation site [posttranslational modification] 521045002205 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 521045002206 ATP binding site [chemical binding]; other site 521045002207 Mg2+ binding site [ion binding]; other site 521045002208 G-X-G motif; other site 521045002209 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 521045002210 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 521045002211 active site 521045002212 phosphorylation site [posttranslational modification] 521045002213 intermolecular recognition site; other site 521045002214 dimerization interface [polypeptide binding]; other site 521045002215 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 521045002216 DNA binding site [nucleotide binding] 521045002217 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 521045002218 PhoU domain; Region: PhoU; pfam01895 521045002219 PhoU domain; Region: PhoU; pfam01895 521045002220 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 521045002221 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 521045002222 Walker A/P-loop; other site 521045002223 ATP binding site [chemical binding]; other site 521045002224 Q-loop/lid; other site 521045002225 ABC transporter signature motif; other site 521045002226 Walker B; other site 521045002227 D-loop; other site 521045002228 H-loop/switch region; other site 521045002229 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 521045002230 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 521045002231 dimer interface [polypeptide binding]; other site 521045002232 conserved gate region; other site 521045002233 putative PBP binding loops; other site 521045002234 ABC-ATPase subunit interface; other site 521045002235 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 521045002236 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 521045002237 dimer interface [polypeptide binding]; other site 521045002238 conserved gate region; other site 521045002239 putative PBP binding loops; other site 521045002240 ABC-ATPase subunit interface; other site 521045002241 phosphate binding protein; Region: ptsS_2; TIGR02136 521045002242 Domain of unknown function (DUF377); Region: DUF377; pfam04041 521045002243 Glycosyl hydrolase family 43 containing a domain of unknown function; Region: GH43_DUF377; cd08993 521045002244 active site 521045002245 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 521045002246 active site 521045002247 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045002248 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 521045002249 manganese transport transcriptional regulator; Provisional; Region: PRK03902 521045002250 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 521045002251 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 521045002252 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 521045002253 FeoA domain; Region: FeoA; pfam04023 521045002254 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 521045002255 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 521045002256 G1 box; other site 521045002257 GTP/Mg2+ binding site [chemical binding]; other site 521045002258 Switch I region; other site 521045002259 G2 box; other site 521045002260 G3 box; other site 521045002261 Switch II region; other site 521045002262 G4 box; other site 521045002263 G5 box; other site 521045002264 Protein of unknown function (DUF964); Region: DUF964; cl01483 521045002265 Nucleoside recognition; Region: Gate; pfam07670 521045002266 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 521045002267 Nucleoside recognition; Region: Gate; pfam07670 521045002268 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045002269 Coenzyme A binding pocket [chemical binding]; other site 521045002270 Protein of unknown function (DUF952); Region: DUF952; cl01393 521045002271 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 521045002272 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 521045002273 FeS/SAM binding site; other site 521045002274 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 521045002275 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 521045002276 active site 521045002277 dimer interface [polypeptide binding]; other site 521045002278 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 521045002279 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 521045002280 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 521045002281 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045002282 Coenzyme A binding pocket [chemical binding]; other site 521045002283 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 521045002284 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 521045002285 metal binding site [ion binding]; metal-binding site 521045002286 dimer interface [polypeptide binding]; other site 521045002287 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 521045002288 dimer interface [polypeptide binding]; other site 521045002289 active site 521045002290 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 521045002291 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 521045002292 dimer interface [polypeptide binding]; other site 521045002293 active site 521045002294 Class I aldolases; Region: Aldolase_Class_I; cl17187 521045002295 catalytic residue [active] 521045002296 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045002297 Zn2+ binding site [ion binding]; other site 521045002298 Mg2+ binding site [ion binding]; other site 521045002299 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 521045002300 putative FMN binding site [chemical binding]; other site 521045002301 NADPH bind site [chemical binding]; other site 521045002302 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 521045002303 Iron-containing alcohol dehydrogenase; Region: Fe-ADH8; cd08186 521045002304 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 521045002305 putative active site [active] 521045002306 metal binding site [ion binding]; metal-binding site 521045002307 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 521045002308 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045002309 Zn2+ binding site [ion binding]; other site 521045002310 Mg2+ binding site [ion binding]; other site 521045002311 stationary phase survival protein SurE; Provisional; Region: PRK13935 521045002312 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 521045002313 active site 521045002314 catalytic residues [active] 521045002315 metal binding site [ion binding]; metal-binding site 521045002316 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 521045002317 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 521045002318 putative active site [active] 521045002319 substrate binding site [chemical binding]; other site 521045002320 putative cosubstrate binding site; other site 521045002321 catalytic site [active] 521045002322 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 521045002323 substrate binding site [chemical binding]; other site 521045002324 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 521045002325 DEAD_2; Region: DEAD_2; pfam06733 521045002326 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 521045002327 comF family protein; Region: comF; TIGR00201 521045002328 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521045002329 active site 521045002330 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 521045002331 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521045002332 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 521045002333 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521045002334 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 521045002335 putative ADP-binding pocket [chemical binding]; other site 521045002336 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 521045002337 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 521045002338 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 521045002339 Active site serine [active] 521045002340 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 521045002341 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 521045002342 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 521045002343 Walker A/P-loop; other site 521045002344 ATP binding site [chemical binding]; other site 521045002345 Q-loop/lid; other site 521045002346 ABC transporter signature motif; other site 521045002347 Walker B; other site 521045002348 D-loop; other site 521045002349 H-loop/switch region; other site 521045002350 Peptidase family S41; Region: Peptidase_S41; pfam03572 521045002351 Active site serine [active] 521045002352 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 521045002353 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 521045002354 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045002355 Walker A/P-loop; other site 521045002356 ATP binding site [chemical binding]; other site 521045002357 Q-loop/lid; other site 521045002358 ABC transporter signature motif; other site 521045002359 Walker B; other site 521045002360 D-loop; other site 521045002361 H-loop/switch region; other site 521045002362 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 521045002363 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 521045002364 FeS/SAM binding site; other site 521045002365 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 521045002366 Transposase, Mutator family; Region: Transposase_mut; pfam00872 521045002367 MULE transposase domain; Region: MULE; pfam10551 521045002368 putative transposase OrfB; Reviewed; Region: PHA02517 521045002369 HTH-like domain; Region: HTH_21; pfam13276 521045002370 Integrase core domain; Region: rve; pfam00665 521045002371 Integrase core domain; Region: rve_3; pfam13683 521045002372 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 521045002373 Transposase; Region: HTH_Tnp_1; cl17663 521045002374 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521045002375 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 521045002376 Walker A/P-loop; other site 521045002377 ATP binding site [chemical binding]; other site 521045002378 Q-loop/lid; other site 521045002379 ABC transporter signature motif; other site 521045002380 Walker B; other site 521045002381 D-loop; other site 521045002382 H-loop/switch region; other site 521045002383 radical SAM/SPASM domain Clo7bot peptide maturase; Region: rSAM_Clo7bot; TIGR04334 521045002384 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 521045002385 FeS/SAM binding site; other site 521045002386 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 521045002387 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 521045002388 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 521045002389 FeS/SAM binding site; other site 521045002390 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 521045002391 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 521045002392 Active site serine [active] 521045002393 Peptidase family S41; Region: Peptidase_S41; pfam03572 521045002394 Active site serine [active] 521045002395 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 521045002396 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521045002397 Walker A/P-loop; other site 521045002398 ATP binding site [chemical binding]; other site 521045002399 Q-loop/lid; other site 521045002400 ABC transporter signature motif; other site 521045002401 Walker B; other site 521045002402 D-loop; other site 521045002403 H-loop/switch region; other site 521045002404 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 521045002405 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 521045002406 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 521045002407 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521045002408 Walker A/P-loop; other site 521045002409 ATP binding site [chemical binding]; other site 521045002410 Q-loop/lid; other site 521045002411 ABC transporter signature motif; other site 521045002412 Walker B; other site 521045002413 D-loop; other site 521045002414 H-loop/switch region; other site 521045002415 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 521045002416 putative transposase OrfB; Reviewed; Region: PHA02517 521045002417 HTH-like domain; Region: HTH_21; pfam13276 521045002418 Integrase core domain; Region: rve; pfam00665 521045002419 Integrase core domain; Region: rve_3; pfam13683 521045002420 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 521045002421 Transposase; Region: HTH_Tnp_1; cl17663 521045002422 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 521045002423 non-specific DNA binding site [nucleotide binding]; other site 521045002424 salt bridge; other site 521045002425 sequence-specific DNA binding site [nucleotide binding]; other site 521045002426 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 521045002427 H+ Antiporter protein; Region: 2A0121; TIGR00900 521045002428 putative substrate translocation pore; other site 521045002429 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 521045002430 H+ Antiporter protein; Region: 2A0121; TIGR00900 521045002431 putative substrate translocation pore; other site 521045002432 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 521045002433 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521045002434 Walker A/P-loop; other site 521045002435 ATP binding site [chemical binding]; other site 521045002436 Q-loop/lid; other site 521045002437 ABC transporter signature motif; other site 521045002438 Walker B; other site 521045002439 D-loop; other site 521045002440 H-loop/switch region; other site 521045002441 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 521045002442 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521045002443 Walker A/P-loop; other site 521045002444 ATP binding site [chemical binding]; other site 521045002445 Q-loop/lid; other site 521045002446 ABC transporter signature motif; other site 521045002447 Walker B; other site 521045002448 D-loop; other site 521045002449 H-loop/switch region; other site 521045002450 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 521045002451 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 521045002452 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 521045002453 Walker A/P-loop; other site 521045002454 ATP binding site [chemical binding]; other site 521045002455 Q-loop/lid; other site 521045002456 ABC transporter signature motif; other site 521045002457 Walker B; other site 521045002458 D-loop; other site 521045002459 H-loop/switch region; other site 521045002460 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 521045002461 H+ Antiporter protein; Region: 2A0121; TIGR00900 521045002462 putative substrate translocation pore; other site 521045002463 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 521045002464 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 521045002465 active site 521045002466 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 521045002467 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 521045002468 predicted active site [active] 521045002469 catalytic triad [active] 521045002470 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 521045002471 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 521045002472 active site 521045002473 multimer interface [polypeptide binding]; other site 521045002474 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 521045002475 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 521045002476 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 521045002477 active site 521045002478 Isochorismatase family; Region: Isochorismatase; pfam00857 521045002479 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 521045002480 catalytic triad [active] 521045002481 conserved cis-peptide bond; other site 521045002482 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 521045002483 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 521045002484 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 521045002485 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 521045002486 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 521045002487 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045002488 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 521045002489 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 521045002490 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 521045002491 dimer interface [polypeptide binding]; other site 521045002492 conserved gate region; other site 521045002493 putative PBP binding loops; other site 521045002494 ABC-ATPase subunit interface; other site 521045002495 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045002496 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 521045002497 dimer interface [polypeptide binding]; other site 521045002498 conserved gate region; other site 521045002499 putative PBP binding loops; other site 521045002500 ABC-ATPase subunit interface; other site 521045002501 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 521045002502 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 521045002503 active site 521045002504 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 521045002505 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 521045002506 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 521045002507 putative active site [active] 521045002508 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 521045002509 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 521045002510 catalytic residue [active] 521045002511 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 521045002512 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 521045002513 GMP synthase subunit A; Validated; Region: PRK00758 521045002514 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cd03128 521045002515 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 521045002516 conserved cys residue [active] 521045002517 conserved cys residue [active] 521045002518 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 521045002519 putative substrate binding pocket [chemical binding]; other site 521045002520 AC domain interface; other site 521045002521 catalytic triad [active] 521045002522 AB domain interface; other site 521045002523 interchain disulfide; other site 521045002524 Predicted amidohydrolase [General function prediction only]; Region: COG0388 521045002525 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 521045002526 active site 521045002527 catalytic triad [active] 521045002528 dimer interface [polypeptide binding]; other site 521045002529 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 521045002530 ABC-2 type transporter; Region: ABC2_membrane; cl17235 521045002531 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045002532 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 521045002533 Walker A/P-loop; other site 521045002534 ATP binding site [chemical binding]; other site 521045002535 Q-loop/lid; other site 521045002536 ABC transporter signature motif; other site 521045002537 Walker B; other site 521045002538 D-loop; other site 521045002539 H-loop/switch region; other site 521045002540 Predicted transcriptional regulators [Transcription]; Region: COG1695 521045002541 Transcriptional regulator PadR-like family; Region: PadR; cl17335 521045002542 EDD domain protein, DegV family; Region: DegV; TIGR00762 521045002543 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 521045002544 Predicted transcriptional regulator [Transcription]; Region: COG3655 521045002545 salt bridge; other site 521045002546 non-specific DNA binding site [nucleotide binding]; other site 521045002547 sequence-specific DNA binding site [nucleotide binding]; other site 521045002548 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 521045002549 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 521045002550 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 521045002551 conserved cys residue [active] 521045002552 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 521045002553 homodimer interface [polypeptide binding]; other site 521045002554 chemical substrate binding site [chemical binding]; other site 521045002555 oligomer interface [polypeptide binding]; other site 521045002556 metal binding site [ion binding]; metal-binding site 521045002557 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 521045002558 putative active site [active] 521045002559 putative CoA binding site [chemical binding]; other site 521045002560 nudix motif; other site 521045002561 metal binding site [ion binding]; metal-binding site 521045002562 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 521045002563 catalytic residues [active] 521045002564 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 521045002565 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 521045002566 FtsX-like permease family; Region: FtsX; pfam02687 521045002567 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 521045002568 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 521045002569 FtsX-like permease family; Region: FtsX; pfam02687 521045002570 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 521045002571 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 521045002572 Walker A/P-loop; other site 521045002573 ATP binding site [chemical binding]; other site 521045002574 Q-loop/lid; other site 521045002575 ABC transporter signature motif; other site 521045002576 Walker B; other site 521045002577 D-loop; other site 521045002578 H-loop/switch region; other site 521045002579 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 521045002580 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 521045002581 dimer interface [polypeptide binding]; other site 521045002582 phosphorylation site [posttranslational modification] 521045002583 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 521045002584 ATP binding site [chemical binding]; other site 521045002585 Mg2+ binding site [ion binding]; other site 521045002586 G-X-G motif; other site 521045002587 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 521045002588 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 521045002589 active site 521045002590 phosphorylation site [posttranslational modification] 521045002591 intermolecular recognition site; other site 521045002592 dimerization interface [polypeptide binding]; other site 521045002593 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 521045002594 DNA binding site [nucleotide binding] 521045002595 peptide chain release factor 1; Validated; Region: prfA; PRK00591 521045002596 This domain is found in peptide chain release factors; Region: PCRF; smart00937 521045002597 RF-1 domain; Region: RF-1; pfam00472 521045002598 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 521045002599 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 521045002600 Walker A motif; other site 521045002601 ATP binding site [chemical binding]; other site 521045002602 Walker B motif; other site 521045002603 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 521045002604 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 521045002605 Ca binding site [ion binding]; other site 521045002606 active site 521045002607 catalytic site [active] 521045002608 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 521045002609 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 521045002610 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045002611 Zn2+ binding site [ion binding]; other site 521045002612 Mg2+ binding site [ion binding]; other site 521045002613 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 521045002614 Ferritin-like domain; Region: Ferritin; pfam00210 521045002615 binuclear metal center [ion binding]; other site 521045002616 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 521045002617 RmuC family; Region: RmuC; pfam02646 521045002618 Protein of unknown function DUF89; Region: DUF89; cl15397 521045002619 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 521045002620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045002621 Coenzyme A binding pocket [chemical binding]; other site 521045002622 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 521045002623 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 521045002624 putative substrate binding site [chemical binding]; other site 521045002625 putative ATP binding site [chemical binding]; other site 521045002626 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 521045002627 RNA methyltransferase, RsmE family; Region: TIGR00046 521045002628 seryl-tRNA synthetase; Provisional; Region: PRK05431 521045002629 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 521045002630 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 521045002631 dimer interface [polypeptide binding]; other site 521045002632 active site 521045002633 motif 1; other site 521045002634 motif 2; other site 521045002635 motif 3; other site 521045002636 OstA-like protein; Region: OstA; cl00844 521045002637 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 521045002638 MarR family; Region: MarR_2; pfam12802 521045002639 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 521045002640 RNA/DNA hybrid binding site [nucleotide binding]; other site 521045002641 active site 521045002642 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 521045002643 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 521045002644 homodimer interface [polypeptide binding]; other site 521045002645 metal binding site [ion binding]; metal-binding site 521045002646 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 521045002647 homodimer interface [polypeptide binding]; other site 521045002648 active site 521045002649 putative chemical substrate binding site [chemical binding]; other site 521045002650 metal binding site [ion binding]; metal-binding site 521045002651 SurA N-terminal domain; Region: SurA_N_3; cl07813 521045002652 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 521045002653 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 521045002654 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 521045002655 S-adenosylmethionine binding site [chemical binding]; other site 521045002656 NAD-dependent deacetylase; Provisional; Region: PRK14138 521045002657 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 521045002658 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 521045002659 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 521045002660 active site 521045002661 HIGH motif; other site 521045002662 dimer interface [polypeptide binding]; other site 521045002663 KMSKS motif; other site 521045002664 ScpA/B protein; Region: ScpA_ScpB; cl00598 521045002665 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 521045002666 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 521045002667 pseudouridine synthase; Region: TIGR00093 521045002668 active site 521045002669 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 521045002670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045002671 Walker A/P-loop; other site 521045002672 ATP binding site [chemical binding]; other site 521045002673 Q-loop/lid; other site 521045002674 ABC transporter signature motif; other site 521045002675 Walker B; other site 521045002676 D-loop; other site 521045002677 H-loop/switch region; other site 521045002678 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 521045002679 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 521045002680 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 521045002681 Walker A/P-loop; other site 521045002682 ATP binding site [chemical binding]; other site 521045002683 Q-loop/lid; other site 521045002684 ABC transporter signature motif; other site 521045002685 Walker B; other site 521045002686 D-loop; other site 521045002687 H-loop/switch region; other site 521045002688 diaminopimelate decarboxylase; Region: lysA; TIGR01048 521045002689 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 521045002690 active site 521045002691 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 521045002692 substrate binding site [chemical binding]; other site 521045002693 catalytic residues [active] 521045002694 dimer interface [polypeptide binding]; other site 521045002695 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 521045002696 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 521045002697 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 521045002698 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045002699 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 521045002700 dimer interface [polypeptide binding]; other site 521045002701 conserved gate region; other site 521045002702 putative PBP binding loops; other site 521045002703 ABC-ATPase subunit interface; other site 521045002704 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 521045002705 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 521045002706 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 521045002707 putative PBP binding loops; other site 521045002708 dimer interface [polypeptide binding]; other site 521045002709 ABC-ATPase subunit interface; other site 521045002710 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045002711 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045002712 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 521045002713 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 521045002714 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 521045002715 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 521045002716 DNA-binding site [nucleotide binding]; DNA binding site 521045002717 UTRA domain; Region: UTRA; pfam07702 521045002718 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 521045002719 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 521045002720 putative active site [active] 521045002721 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 521045002722 Beta-lactamase; Region: Beta-lactamase; pfam00144 521045002723 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 521045002724 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 521045002725 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 521045002726 dimerization interface [polypeptide binding]; other site 521045002727 ligand binding site [chemical binding]; other site 521045002728 NADP binding site [chemical binding]; other site 521045002729 catalytic site [active] 521045002730 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 521045002731 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 521045002732 transmembrane helices; other site 521045002733 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 521045002734 Clp amino terminal domain; Region: Clp_N; pfam02861 521045002735 Clp amino terminal domain; Region: Clp_N; pfam02861 521045002736 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 521045002737 Walker A motif; other site 521045002738 ATP binding site [chemical binding]; other site 521045002739 Walker B motif; other site 521045002740 arginine finger; other site 521045002741 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 521045002742 Walker A motif; other site 521045002743 ATP binding site [chemical binding]; other site 521045002744 Walker B motif; other site 521045002745 arginine finger; other site 521045002746 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 521045002747 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 521045002748 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 521045002749 putative dimer interface [polypeptide binding]; other site 521045002750 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 521045002751 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 521045002752 nucleotide binding site [chemical binding]; other site 521045002753 NEF interaction site [polypeptide binding]; other site 521045002754 SBD interface [polypeptide binding]; other site 521045002755 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 521045002756 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 521045002757 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 521045002758 DNA polymerase III PolC; Validated; Region: polC; PRK00448 521045002759 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 521045002760 generic binding surface II; other site 521045002761 generic binding surface I; other site 521045002762 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 521045002763 active site 521045002764 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 521045002765 active site 521045002766 catalytic site [active] 521045002767 substrate binding site [chemical binding]; other site 521045002768 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 521045002769 putative PHP Thumb interface [polypeptide binding]; other site 521045002770 active site 521045002771 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 521045002772 active site 521045002773 putative DNA-binding cleft [nucleotide binding]; other site 521045002774 dimer interface [polypeptide binding]; other site 521045002775 ribonuclease III; Reviewed; Region: rnc; PRK00102 521045002776 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 521045002777 dimerization interface [polypeptide binding]; other site 521045002778 active site 521045002779 metal binding site [ion binding]; metal-binding site 521045002780 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 521045002781 dsRNA binding site [nucleotide binding]; other site 521045002782 transketolase; Reviewed; Region: PRK05899 521045002783 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 521045002784 TPP-binding site [chemical binding]; other site 521045002785 dimer interface [polypeptide binding]; other site 521045002786 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 521045002787 PYR/PP interface [polypeptide binding]; other site 521045002788 dimer interface [polypeptide binding]; other site 521045002789 TPP binding site [chemical binding]; other site 521045002790 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 521045002791 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 521045002792 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 521045002793 DNA polymerase III subunit delta'; Validated; Region: PRK08485 521045002794 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 521045002795 active site 521045002796 multimer interface [polypeptide binding]; other site 521045002797 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 521045002798 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 521045002799 putative RNA binding site [nucleotide binding]; other site 521045002800 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 521045002801 S-adenosylmethionine binding site [chemical binding]; other site 521045002802 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 521045002803 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 521045002804 ligand binding site; other site 521045002805 oligomer interface; other site 521045002806 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 521045002807 dimer interface [polypeptide binding]; other site 521045002808 N-terminal domain interface [polypeptide binding]; other site 521045002809 sulfate 1 binding site; other site 521045002810 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 521045002811 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 521045002812 ligand binding site; other site 521045002813 oligomer interface; other site 521045002814 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 521045002815 dimer interface [polypeptide binding]; other site 521045002816 N-terminal domain interface [polypeptide binding]; other site 521045002817 sulfate 1 binding site; other site 521045002818 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 521045002819 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 521045002820 active site 521045002821 metal binding site [ion binding]; metal-binding site 521045002822 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 521045002823 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 521045002824 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 521045002825 SLBB domain; Region: SLBB; pfam10531 521045002826 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 521045002827 FMN-binding domain; Region: FMN_bind; cl01081 521045002828 electron transport complex RsxE subunit; Provisional; Region: PRK12405 521045002829 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 521045002830 Putative Fe-S cluster; Region: FeS; cl17515 521045002831 Putative Fe-S cluster; Region: FeS; cl17515 521045002832 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 521045002833 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 521045002834 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 521045002835 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 521045002836 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 521045002837 active site 521045002838 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 521045002839 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 521045002840 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 521045002841 putative substrate binding region [chemical binding]; other site 521045002842 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 521045002843 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 521045002844 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 521045002845 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 521045002846 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 521045002847 NAD binding site [chemical binding]; other site 521045002848 dimer interface [polypeptide binding]; other site 521045002849 substrate binding site [chemical binding]; other site 521045002850 tetramer (dimer of dimers) interface [polypeptide binding]; other site 521045002851 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 521045002852 PEGA domain; Region: PEGA; pfam08308 521045002853 PEGA domain; Region: PEGA; pfam08308 521045002854 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 521045002855 EamA-like transporter family; Region: EamA; pfam00892 521045002856 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 521045002857 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 521045002858 active site 521045002859 phosphorylation site [posttranslational modification] 521045002860 intermolecular recognition site; other site 521045002861 dimerization interface [polypeptide binding]; other site 521045002862 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 521045002863 DNA binding site [nucleotide binding] 521045002864 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 521045002865 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 521045002866 dimerization interface [polypeptide binding]; other site 521045002867 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 521045002868 dimer interface [polypeptide binding]; other site 521045002869 phosphorylation site [posttranslational modification] 521045002870 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 521045002871 ATP binding site [chemical binding]; other site 521045002872 Mg2+ binding site [ion binding]; other site 521045002873 G-X-G motif; other site 521045002874 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 521045002875 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 521045002876 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 521045002877 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 521045002878 RNA binding site [nucleotide binding]; other site 521045002879 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; cl17342 521045002880 active site 521045002881 domain interfaces; other site 521045002882 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 521045002883 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 521045002884 metal-binding site [ion binding] 521045002885 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 521045002886 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 521045002887 ATP binding site [chemical binding]; other site 521045002888 Mg++ binding site [ion binding]; other site 521045002889 motif III; other site 521045002890 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 521045002891 nucleotide binding region [chemical binding]; other site 521045002892 ATP-binding site [chemical binding]; other site 521045002893 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 521045002894 RNA binding site [nucleotide binding]; other site 521045002895 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 521045002896 PAS domain; Region: PAS_9; pfam13426 521045002897 putative active site [active] 521045002898 heme pocket [chemical binding]; other site 521045002899 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 521045002900 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 521045002901 metal binding site [ion binding]; metal-binding site 521045002902 active site 521045002903 I-site; other site 521045002904 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 521045002905 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 521045002906 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 521045002907 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; cd02065 521045002908 B12 binding site [chemical binding]; other site 521045002909 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cl02025 521045002910 B12 cofactor binding site [chemical binding]; other site 521045002911 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 521045002912 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 521045002913 ATP-grasp domain; Region: ATP-grasp_4; cl17255 521045002914 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 521045002915 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 521045002916 active site 521045002917 nucleophile elbow; other site 521045002918 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 521045002919 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 521045002920 GTP/Mg2+ binding site [chemical binding]; other site 521045002921 G4 box; other site 521045002922 G5 box; other site 521045002923 G1 box; other site 521045002924 Switch I region; other site 521045002925 G2 box; other site 521045002926 G3 box; other site 521045002927 Switch II region; other site 521045002928 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 521045002929 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 521045002930 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045002931 putative substrate translocation pore; other site 521045002932 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 521045002933 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 521045002934 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 521045002935 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 521045002936 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 521045002937 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; cl12060 521045002938 Metal-binding active site; metal-binding site 521045002939 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521045002940 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 521045002941 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045002942 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 521045002943 dimer interface [polypeptide binding]; other site 521045002944 conserved gate region; other site 521045002945 putative PBP binding loops; other site 521045002946 ABC-ATPase subunit interface; other site 521045002947 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 521045002948 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 521045002949 dimer interface [polypeptide binding]; other site 521045002950 conserved gate region; other site 521045002951 putative PBP binding loops; other site 521045002952 ABC-ATPase subunit interface; other site 521045002953 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 521045002954 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 521045002955 NAD(P) binding site [chemical binding]; other site 521045002956 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 521045002957 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 521045002958 DNA binding residues [nucleotide binding] 521045002959 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 521045002960 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 521045002961 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 521045002962 putative active site; other site 521045002963 catalytic residue [active] 521045002964 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 521045002965 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 521045002966 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 521045002967 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 521045002968 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 521045002969 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 521045002970 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 521045002971 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 521045002972 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 521045002973 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 521045002974 putative active site [active] 521045002975 putative metal binding site [ion binding]; other site 521045002976 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 521045002977 catalytic residues [active] 521045002978 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 521045002979 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 521045002980 dimer interface [polypeptide binding]; other site 521045002981 active site 521045002982 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 521045002983 galactokinase; Provisional; Region: PRK03817 521045002984 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 521045002985 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 521045002986 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 521045002987 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 521045002988 putative ligand binding site [chemical binding]; other site 521045002989 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045002990 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 521045002991 TM-ABC transporter signature motif; other site 521045002992 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045002993 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 521045002994 TM-ABC transporter signature motif; other site 521045002995 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 521045002996 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 521045002997 Walker A/P-loop; other site 521045002998 ATP binding site [chemical binding]; other site 521045002999 Q-loop/lid; other site 521045003000 ABC transporter signature motif; other site 521045003001 Walker B; other site 521045003002 D-loop; other site 521045003003 H-loop/switch region; other site 521045003004 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 521045003005 PspC domain; Region: PspC; pfam04024 521045003006 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 521045003007 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 521045003008 B12 binding site [chemical binding]; other site 521045003009 cobalt ligand [ion binding]; other site 521045003010 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 521045003011 MutS domain III; Region: MutS_III; pfam05192 521045003012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045003013 NACHT domain; Region: NACHT; pfam05729 521045003014 Walker A/P-loop; other site 521045003015 ATP binding site [chemical binding]; other site 521045003016 Q-loop/lid; other site 521045003017 ABC transporter signature motif; other site 521045003018 Walker B; other site 521045003019 D-loop; other site 521045003020 H-loop/switch region; other site 521045003021 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 521045003022 dimer interaction site [polypeptide binding]; other site 521045003023 substrate-binding tunnel; other site 521045003024 active site 521045003025 catalytic site [active] 521045003026 substrate binding site [chemical binding]; other site 521045003027 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 521045003028 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 521045003029 FeS/SAM binding site; other site 521045003030 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 521045003031 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 521045003032 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 521045003033 NAD(P) binding site [chemical binding]; other site 521045003034 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 521045003035 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; cd03440 521045003036 active site 2 [active] 521045003037 active site 1 [active] 521045003038 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 521045003039 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 521045003040 S-adenosylmethionine binding site [chemical binding]; other site 521045003041 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 521045003042 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 521045003043 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 521045003044 dimer interface [polypeptide binding]; other site 521045003045 active site 521045003046 CoA binding pocket [chemical binding]; other site 521045003047 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 521045003048 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 521045003049 FMN binding site [chemical binding]; other site 521045003050 substrate binding site [chemical binding]; other site 521045003051 putative catalytic residue [active] 521045003052 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 521045003053 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 521045003054 acyl carrier protein; Provisional; Region: acpP; PRK00982 521045003055 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 521045003056 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 521045003057 dimer interface [polypeptide binding]; other site 521045003058 active site 521045003059 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 521045003060 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 521045003061 metal ion-dependent adhesion site (MIDAS); other site 521045003062 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 521045003063 metal ion-dependent adhesion site (MIDAS); other site 521045003064 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 521045003065 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 521045003066 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 521045003067 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 521045003068 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; cd01066 521045003069 active site 521045003070 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 521045003071 Domain of unknown function (DUF377); Region: DUF377; pfam04041 521045003072 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 521045003073 active site 521045003074 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 521045003075 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 521045003076 substrate binding site [chemical binding]; other site 521045003077 ATP binding site [chemical binding]; other site 521045003078 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 521045003079 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; cl12060 521045003080 AP (apurinic/apyrimidinic) site pocket; other site 521045003081 DNA interaction; other site 521045003082 Metal-binding active site; metal-binding site 521045003083 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 521045003084 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 521045003085 Walker A/P-loop; other site 521045003086 ATP binding site [chemical binding]; other site 521045003087 Q-loop/lid; other site 521045003088 ABC transporter signature motif; other site 521045003089 Walker B; other site 521045003090 D-loop; other site 521045003091 H-loop/switch region; other site 521045003092 TOBE domain; Region: TOBE; pfam03459 521045003093 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045003094 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 521045003095 dimer interface [polypeptide binding]; other site 521045003096 conserved gate region; other site 521045003097 putative PBP binding loops; other site 521045003098 ABC-ATPase subunit interface; other site 521045003099 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 521045003100 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 521045003101 dimer interface [polypeptide binding]; other site 521045003102 conserved gate region; other site 521045003103 putative PBP binding loops; other site 521045003104 ABC-ATPase subunit interface; other site 521045003105 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045003106 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045003107 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 521045003108 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 521045003109 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 521045003110 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 521045003111 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 521045003112 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 521045003113 PYR/PP interface [polypeptide binding]; other site 521045003114 dimer interface [polypeptide binding]; other site 521045003115 TPP binding site [chemical binding]; other site 521045003116 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 521045003117 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 521045003118 TPP-binding site; other site 521045003119 KduI/IolB family; Region: KduI; pfam04962 521045003120 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 521045003121 tartrate dehydrogenase; Provisional; Region: PRK08194 521045003122 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 521045003123 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 521045003124 PYR/PP interface [polypeptide binding]; other site 521045003125 dimer interface [polypeptide binding]; other site 521045003126 TPP binding site [chemical binding]; other site 521045003127 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 521045003128 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 521045003129 transketolase; Reviewed; Region: PRK05899 521045003130 TPP-binding site [chemical binding]; other site 521045003131 dimer interface [polypeptide binding]; other site 521045003132 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 521045003133 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 521045003134 Phosphoglycerate kinase; Region: PGK; pfam00162 521045003135 substrate binding site [chemical binding]; other site 521045003136 hinge regions; other site 521045003137 ADP binding site [chemical binding]; other site 521045003138 catalytic site [active] 521045003139 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PRK04207 521045003140 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 521045003141 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 521045003142 Transcriptional regulators [Transcription]; Region: PurR; COG1609 521045003143 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 521045003144 DNA binding site [nucleotide binding] 521045003145 domain linker motif; other site 521045003146 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 521045003147 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 521045003148 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 521045003149 ATP binding site [chemical binding]; other site 521045003150 substrate interface [chemical binding]; other site 521045003151 Ubiquitin-like proteins; Region: UBQ; cl00155 521045003152 Predicted GTPase [General function prediction only]; Region: COG2403 521045003153 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 521045003154 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 521045003155 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 521045003156 S-adenosylmethionine binding site [chemical binding]; other site 521045003157 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 521045003158 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045003159 Zn2+ binding site [ion binding]; other site 521045003160 Mg2+ binding site [ion binding]; other site 521045003161 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 521045003162 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 521045003163 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 521045003164 Peptidase family C69; Region: Peptidase_C69; cl17793 521045003165 Uncharacterized conserved protein [Function unknown]; Region: COG1434 521045003166 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 521045003167 putative active site [active] 521045003168 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 521045003169 Glycerophosphodiester phosphodiesterase domain of Thermotoga maritime and similar proteins; Region: GDPD_TmGDE_like; cd08568 521045003170 putative active site [active] 521045003171 catalytic site [active] 521045003172 putative metal binding site [ion binding]; other site 521045003173 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 521045003174 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 521045003175 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 521045003176 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 521045003177 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 521045003178 Glutamate binding site [chemical binding]; other site 521045003179 homodimer interface [polypeptide binding]; other site 521045003180 NAD binding site [chemical binding]; other site 521045003181 catalytic residues [active] 521045003182 6-phosphofructokinase; Provisional; Region: PRK14072 521045003183 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 521045003184 active site 521045003185 ADP/pyrophosphate binding site [chemical binding]; other site 521045003186 dimerization interface [polypeptide binding]; other site 521045003187 allosteric effector site; other site 521045003188 fructose-1,6-bisphosphate binding site; other site 521045003189 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 521045003190 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 521045003191 active site 521045003192 phosphorylation site [posttranslational modification] 521045003193 intermolecular recognition site; other site 521045003194 dimerization interface [polypeptide binding]; other site 521045003195 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045003196 Zn2+ binding site [ion binding]; other site 521045003197 Mg2+ binding site [ion binding]; other site 521045003198 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 521045003199 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 521045003200 active site 521045003201 phosphorylation site [posttranslational modification] 521045003202 intermolecular recognition site; other site 521045003203 dimerization interface [polypeptide binding]; other site 521045003204 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 521045003205 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 521045003206 dimer interface [polypeptide binding]; other site 521045003207 phosphorylation site [posttranslational modification] 521045003208 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 521045003209 ATP binding site [chemical binding]; other site 521045003210 Mg2+ binding site [ion binding]; other site 521045003211 G-X-G motif; other site 521045003212 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045003213 Integrase core domain; Region: rve; pfam00665 521045003214 transposase; Provisional; Region: PRK06526 521045003215 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 521045003216 Walker A motif; other site 521045003217 ATP binding site [chemical binding]; other site 521045003218 Walker B motif; other site 521045003219 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 521045003220 dimerization interface [polypeptide binding]; other site 521045003221 putative DNA binding site [nucleotide binding]; other site 521045003222 putative Zn2+ binding site [ion binding]; other site 521045003223 dipeptidase PepV; Reviewed; Region: PRK07318 521045003224 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 521045003225 active site 521045003226 metal binding site [ion binding]; metal-binding site 521045003227 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 521045003228 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 521045003229 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 521045003230 GAF domain; Region: GAF; pfam01590 521045003231 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 521045003232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 521045003233 metal binding site [ion binding]; metal-binding site 521045003234 active site 521045003235 I-site; other site 521045003236 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045003237 Zn2+ binding site [ion binding]; other site 521045003238 Mg2+ binding site [ion binding]; other site 521045003239 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 521045003240 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 521045003241 ligand binding site [chemical binding]; other site 521045003242 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 521045003243 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 521045003244 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 521045003245 Part of AAA domain; Region: AAA_19; pfam13245 521045003246 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 521045003247 Part of AAA domain; Region: AAA_19; pfam13245 521045003248 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 521045003249 AAA domain; Region: AAA_14; pfam13173 521045003250 Family description; Region: UvrD_C_2; pfam13538 521045003251 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 521045003252 Bacterial PH domain; Region: DUF304; pfam03703 521045003253 CAAX protease self-immunity; Region: Abi; pfam02517 521045003254 Predicted transcriptional regulators [Transcription]; Region: COG1695 521045003255 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 521045003256 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 521045003257 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 521045003258 beta-galactosidase; Region: BGL; TIGR03356 521045003259 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521045003260 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 521045003261 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045003262 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 521045003263 dimer interface [polypeptide binding]; other site 521045003264 conserved gate region; other site 521045003265 putative PBP binding loops; other site 521045003266 ABC-ATPase subunit interface; other site 521045003267 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 521045003268 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 521045003269 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 521045003270 putative PBP binding loops; other site 521045003271 dimer interface [polypeptide binding]; other site 521045003272 ABC-ATPase subunit interface; other site 521045003273 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045003274 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045003275 beta-phosphoglucomutase; Region: bPGM; TIGR01990 521045003276 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 521045003277 motif II; other site 521045003278 Transcriptional regulators [Transcription]; Region: PurR; COG1609 521045003279 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 521045003280 DNA binding site [nucleotide binding] 521045003281 domain linker motif; other site 521045003282 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 521045003283 dimerization interface [polypeptide binding]; other site 521045003284 ligand binding site [chemical binding]; other site 521045003285 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 521045003286 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045003287 putative substrate translocation pore; other site 521045003288 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 521045003289 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 521045003290 putative active site [active] 521045003291 putative NTP binding site [chemical binding]; other site 521045003292 putative nucleic acid binding site [nucleotide binding]; other site 521045003293 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 521045003294 Transposase, Mutator family; Region: Transposase_mut; pfam00872 521045003295 MULE transposase domain; Region: MULE; pfam10551 521045003296 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 521045003297 hypothetical protein; Reviewed; Region: PRK09588 521045003298 transposase; Provisional; Region: PRK06526 521045003299 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 521045003300 Walker A motif; other site 521045003301 ATP binding site [chemical binding]; other site 521045003302 Walker B motif; other site 521045003303 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045003304 Integrase core domain; Region: rve; pfam00665 521045003305 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 521045003306 radical SAM/SPASM domain protein, ACGX system; Region: rSAM_ACGX; TIGR04340 521045003307 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 521045003308 FeS/SAM binding site; other site 521045003309 transposase; Provisional; Region: PRK06526 521045003310 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 521045003311 Walker A motif; other site 521045003312 ATP binding site [chemical binding]; other site 521045003313 Walker B motif; other site 521045003314 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045003315 Integrase core domain; Region: rve; pfam00665 521045003316 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 521045003317 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 521045003318 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 521045003319 PQQ-like domain; Region: PQQ_2; pfam13360 521045003320 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 521045003321 Trp docking motif [polypeptide binding]; other site 521045003322 active site 521045003323 PGAP1-like protein; Region: PGAP1; pfam07819 521045003324 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 521045003325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 521045003326 NAD(P) binding site [chemical binding]; other site 521045003327 active site 521045003328 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045003329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 521045003330 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 521045003331 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 521045003332 putative ADP-binding pocket [chemical binding]; other site 521045003333 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 521045003334 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 521045003335 putative substrate binding site [chemical binding]; other site 521045003336 putative ATP binding site [chemical binding]; other site 521045003337 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045003338 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 521045003339 dimer interface [polypeptide binding]; other site 521045003340 conserved gate region; other site 521045003341 putative PBP binding loops; other site 521045003342 ABC-ATPase subunit interface; other site 521045003343 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 521045003344 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 521045003345 putative PBP binding loops; other site 521045003346 ABC-ATPase subunit interface; other site 521045003347 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045003348 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045003349 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 521045003350 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 521045003351 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 521045003352 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 521045003353 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 521045003354 Predicted amidohydrolase [General function prediction only]; Region: COG0388 521045003355 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 521045003356 active site 521045003357 catalytic triad [active] 521045003358 dimer interface [polypeptide binding]; other site 521045003359 SWIM zinc finger; Region: SWIM; pfam04434 521045003360 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 521045003361 Radical SAM superfamily; Region: Radical_SAM; pfam04055 521045003362 FeS/SAM binding site; other site 521045003363 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 521045003364 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 521045003365 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 521045003366 4Fe-4S binding domain; Region: Fer4; pfam00037 521045003367 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 521045003368 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 521045003369 metal-binding site [ion binding] 521045003370 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 521045003371 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 521045003372 metal-binding site [ion binding] 521045003373 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 521045003374 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 521045003375 motif II; other site 521045003376 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 521045003377 metal-binding site [ion binding] 521045003378 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 521045003379 putative homotetramer interface [polypeptide binding]; other site 521045003380 putative homodimer interface [polypeptide binding]; other site 521045003381 putative allosteric switch controlling residues; other site 521045003382 putative metal binding site [ion binding]; other site 521045003383 putative acetyltransferase YhhY; Provisional; Region: PRK10140 521045003384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045003385 Coenzyme A binding pocket [chemical binding]; other site 521045003386 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 521045003387 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 521045003388 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 521045003389 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 521045003390 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 521045003391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 521045003392 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 521045003393 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 521045003394 metal ion-dependent adhesion site (MIDAS); other site 521045003395 MoxR-like ATPases [General function prediction only]; Region: COG0714 521045003396 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 521045003397 Walker A motif; other site 521045003398 ATP binding site [chemical binding]; other site 521045003399 Walker B motif; other site 521045003400 arginine finger; other site 521045003401 Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like...; Region: CH; cl00030 521045003402 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 521045003403 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 521045003404 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 521045003405 dockerin binding interface; other site 521045003406 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 521045003407 active site 521045003408 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 521045003409 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 521045003410 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 521045003411 putative ligand binding site [chemical binding]; other site 521045003412 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045003413 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 521045003414 TM-ABC transporter signature motif; other site 521045003415 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 521045003416 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 521045003417 TM-ABC transporter signature motif; other site 521045003418 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 521045003419 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 521045003420 Walker A/P-loop; other site 521045003421 ATP binding site [chemical binding]; other site 521045003422 Q-loop/lid; other site 521045003423 ABC transporter signature motif; other site 521045003424 Walker B; other site 521045003425 D-loop; other site 521045003426 H-loop/switch region; other site 521045003427 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 521045003428 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 521045003429 Walker A/P-loop; other site 521045003430 ATP binding site [chemical binding]; other site 521045003431 Q-loop/lid; other site 521045003432 ABC transporter signature motif; other site 521045003433 Walker B; other site 521045003434 D-loop; other site 521045003435 H-loop/switch region; other site 521045003436 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 521045003437 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 521045003438 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 521045003439 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 521045003440 DXD motif; other site 521045003441 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 521045003442 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 521045003443 active site 521045003444 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 521045003445 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 521045003446 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 521045003447 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 521045003448 putative acyl-acceptor binding pocket; other site 521045003449 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 521045003450 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 521045003451 metal binding site [ion binding]; metal-binding site 521045003452 active site 521045003453 I-site; other site 521045003454 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 521045003455 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 521045003456 active site 521045003457 metal binding site [ion binding]; metal-binding site 521045003458 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 521045003459 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 521045003460 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 521045003461 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 521045003462 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 521045003463 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 521045003464 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 521045003465 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 521045003466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045003467 Walker A/P-loop; other site 521045003468 ATP binding site [chemical binding]; other site 521045003469 Q-loop/lid; other site 521045003470 ABC transporter signature motif; other site 521045003471 Walker B; other site 521045003472 D-loop; other site 521045003473 H-loop/switch region; other site 521045003474 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 521045003475 Carbon starvation protein CstA; Region: CstA; pfam02554 521045003476 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 521045003477 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 521045003478 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 521045003479 active site 521045003480 phosphorylation site [posttranslational modification] 521045003481 intermolecular recognition site; other site 521045003482 dimerization interface [polypeptide binding]; other site 521045003483 LytTr DNA-binding domain; Region: LytTR; smart00850 521045003484 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 521045003485 Histidine kinase; Region: His_kinase; pfam06580 521045003486 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 521045003487 ATP binding site [chemical binding]; other site 521045003488 Mg2+ binding site [ion binding]; other site 521045003489 G-X-G motif; other site 521045003490 peroxiredoxin; Provisional; Region: PRK13189 521045003491 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 521045003492 dimer interface [polypeptide binding]; other site 521045003493 decamer (pentamer of dimers) interface [polypeptide binding]; other site 521045003494 catalytic triad [active] 521045003495 Predicted transcriptional regulators [Transcription]; Region: COG1695 521045003496 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 521045003497 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 521045003498 hydroxyglutarate oxidase; Provisional; Region: PRK11728 521045003499 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 521045003500 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 521045003501 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 521045003502 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 521045003503 FeS/SAM binding site; other site 521045003504 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 521045003505 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 521045003506 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 521045003507 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 521045003508 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 521045003509 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 521045003510 P loop nucleotide binding; other site 521045003511 switch II; other site 521045003512 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 521045003513 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 521045003514 P loop nucleotide binding; other site 521045003515 switch II; other site 521045003516 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 521045003517 dimer interface [polypeptide binding]; other site 521045003518 substrate binding site [chemical binding]; other site 521045003519 metal binding sites [ion binding]; metal-binding site 521045003520 GAF domain; Region: GAF; pfam01590 521045003521 GAF domain; Region: GAF_2; pfam13185 521045003522 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045003523 Zn2+ binding site [ion binding]; other site 521045003524 Mg2+ binding site [ion binding]; other site 521045003525 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 521045003526 PAS fold; Region: PAS_3; pfam08447 521045003527 putative active site [active] 521045003528 heme pocket [chemical binding]; other site 521045003529 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 521045003530 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045003531 Zn2+ binding site [ion binding]; other site 521045003532 Mg2+ binding site [ion binding]; other site 521045003533 Integrase core domain; Region: rve; pfam00665 521045003534 Transposase, Mutator family; Region: Transposase_mut; pfam00872 521045003535 MULE transposase domain; Region: MULE; pfam10551 521045003536 Transposase, Mutator family; Region: Transposase_mut; pfam00872 521045003537 MULE transposase domain; Region: MULE; pfam10551 521045003538 Peptidase family M48; Region: Peptidase_M48; cl12018 521045003539 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 521045003540 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 521045003541 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 521045003542 active site 521045003543 motif I; other site 521045003544 motif II; other site 521045003545 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 521045003546 NTPase; Region: NTPase_1; cl17478 521045003547 Predicted permease; Region: DUF318; cl17795 521045003548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045003549 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 521045003550 Walker A/P-loop; other site 521045003551 ATP binding site [chemical binding]; other site 521045003552 Q-loop/lid; other site 521045003553 ABC transporter signature motif; other site 521045003554 Walker B; other site 521045003555 D-loop; other site 521045003556 H-loop/switch region; other site 521045003557 hybrid cluster protein; Provisional; Region: PRK05290 521045003558 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 521045003559 ACS interaction site; other site 521045003560 CODH interaction site; other site 521045003561 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 521045003562 hybrid metal cluster; other site 521045003563 Uncharacterized conserved protein [Function unknown]; Region: COG2461 521045003564 Family of unknown function (DUF438); Region: DUF438; pfam04282 521045003565 Hemerythrin-like domain; Region: Hr-like; cd12108 521045003566 Fe binding site [ion binding]; other site 521045003567 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 521045003568 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 521045003569 ligand binding site [chemical binding]; other site 521045003570 flexible hinge region; other site 521045003571 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 521045003572 putative switch regulator; other site 521045003573 non-specific DNA interactions [nucleotide binding]; other site 521045003574 DNA binding site [nucleotide binding] 521045003575 sequence specific DNA binding site [nucleotide binding]; other site 521045003576 putative cAMP binding site [chemical binding]; other site 521045003577 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 521045003578 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 521045003579 ligand binding site [chemical binding]; other site 521045003580 flexible hinge region; other site 521045003581 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 521045003582 putative switch regulator; other site 521045003583 non-specific DNA interactions [nucleotide binding]; other site 521045003584 DNA binding site [nucleotide binding] 521045003585 sequence specific DNA binding site [nucleotide binding]; other site 521045003586 putative cAMP binding site [chemical binding]; other site 521045003587 Predicted permease; Region: DUF318; cl17795 521045003588 Predicted permease; Region: DUF318; cl17795 521045003589 Putative Fe-S cluster; Region: FeS; cl17515 521045003590 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 521045003591 PHP domain; Region: PHP; pfam02811 521045003592 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 521045003593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045003594 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 521045003595 Walker A/P-loop; other site 521045003596 ATP binding site [chemical binding]; other site 521045003597 Q-loop/lid; other site 521045003598 ABC transporter signature motif; other site 521045003599 Walker B; other site 521045003600 D-loop; other site 521045003601 H-loop/switch region; other site 521045003602 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 521045003603 ABC-2 type transporter; Region: ABC2_membrane; cl17235 521045003604 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 521045003605 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 521045003606 ABC transporter; Region: ABC_tran_2; pfam12848 521045003607 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 521045003608 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 521045003609 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 521045003610 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 521045003611 Transcriptional regulators [Transcription]; Region: PurR; COG1609 521045003612 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 521045003613 DNA binding site [nucleotide binding] 521045003614 domain linker motif; other site 521045003615 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 521045003616 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 521045003617 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045003618 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 521045003619 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 521045003620 dimer interface [polypeptide binding]; other site 521045003621 conserved gate region; other site 521045003622 putative PBP binding loops; other site 521045003623 ABC-ATPase subunit interface; other site 521045003624 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045003625 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 521045003626 dimer interface [polypeptide binding]; other site 521045003627 conserved gate region; other site 521045003628 putative PBP binding loops; other site 521045003629 ABC-ATPase subunit interface; other site 521045003630 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 521045003631 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 521045003632 active site 521045003633 catalytic site [active] 521045003634 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 521045003635 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 521045003636 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 521045003637 nucleotide binding site [chemical binding]; other site 521045003638 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 521045003639 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 521045003640 conserved cys residue [active] 521045003641 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 521045003642 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 521045003643 putative ligand binding site [chemical binding]; other site 521045003644 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045003645 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 521045003646 dimer interface [polypeptide binding]; other site 521045003647 conserved gate region; other site 521045003648 putative PBP binding loops; other site 521045003649 ABC-ATPase subunit interface; other site 521045003650 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 521045003651 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 521045003652 dimer interface [polypeptide binding]; other site 521045003653 conserved gate region; other site 521045003654 putative PBP binding loops; other site 521045003655 ABC-ATPase subunit interface; other site 521045003656 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045003657 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045003658 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 521045003659 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 521045003660 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 521045003661 putative active site cavity [active] 521045003662 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 521045003663 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 521045003664 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 521045003665 putative active site [active] 521045003666 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 521045003667 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 521045003668 dimer interface [polypeptide binding]; other site 521045003669 active site 521045003670 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 521045003671 dimer interface [polypeptide binding]; other site 521045003672 active site 521045003673 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 521045003674 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 521045003675 Coenzyme A binding pocket [chemical binding]; other site 521045003676 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 521045003677 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045003678 putative substrate translocation pore; other site 521045003679 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 521045003680 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 521045003681 motif II; other site 521045003682 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 521045003683 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 521045003684 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 521045003685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045003686 Coenzyme A binding pocket [chemical binding]; other site 521045003687 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 521045003688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045003689 Walker A/P-loop; other site 521045003690 ATP binding site [chemical binding]; other site 521045003691 Q-loop/lid; other site 521045003692 ABC transporter signature motif; other site 521045003693 Walker B; other site 521045003694 D-loop; other site 521045003695 H-loop/switch region; other site 521045003696 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 521045003697 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 521045003698 TM1410 hypothetical-related protein; Region: DUF297; cl00997 521045003699 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 521045003700 EamA-like transporter family; Region: EamA; pfam00892 521045003701 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 521045003702 Transcriptional regulators [Transcription]; Region: PurR; COG1609 521045003703 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 521045003704 DNA binding site [nucleotide binding] 521045003705 domain linker motif; other site 521045003706 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 521045003707 dimerization interface [polypeptide binding]; other site 521045003708 ligand binding site [chemical binding]; other site 521045003709 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 521045003710 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 521045003711 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045003712 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045003713 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 521045003714 dimer interface [polypeptide binding]; other site 521045003715 conserved gate region; other site 521045003716 putative PBP binding loops; other site 521045003717 ABC-ATPase subunit interface; other site 521045003718 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045003719 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 521045003720 dimer interface [polypeptide binding]; other site 521045003721 conserved gate region; other site 521045003722 putative PBP binding loops; other site 521045003723 ABC-ATPase subunit interface; other site 521045003724 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 521045003725 Protein of unknown function (DUF401); Region: DUF401; cl00830 521045003726 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 521045003727 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045003728 Zn2+ binding site [ion binding]; other site 521045003729 Mg2+ binding site [ion binding]; other site 521045003730 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 521045003731 Predicted amidohydrolase [General function prediction only]; Region: COG0388 521045003732 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 521045003733 active site 521045003734 catalytic triad [active] 521045003735 dimer interface [polypeptide binding]; other site 521045003736 Predicted amidohydrolase [General function prediction only]; Region: COG0388 521045003737 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 521045003738 active site 521045003739 catalytic triad [active] 521045003740 dimer interface [polypeptide binding]; other site 521045003741 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 521045003742 putative substrate translocation pore; other site 521045003743 Major Facilitator Superfamily; Region: MFS_1; pfam07690 521045003744 Predicted membrane protein [Function unknown]; Region: COG3462 521045003745 Short C-terminal domain; Region: SHOCT; pfam09851 521045003746 Short C-terminal domain; Region: SHOCT; pfam09851 521045003747 hypothetical protein; Provisional; Region: PRK09272 521045003748 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521045003749 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 521045003750 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 521045003751 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 521045003752 Walker A/P-loop; other site 521045003753 ATP binding site [chemical binding]; other site 521045003754 Q-loop/lid; other site 521045003755 ABC transporter signature motif; other site 521045003756 Walker B; other site 521045003757 D-loop; other site 521045003758 H-loop/switch region; other site 521045003759 TOBE domain; Region: TOBE_2; pfam08402 521045003760 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045003761 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 521045003762 dimer interface [polypeptide binding]; other site 521045003763 conserved gate region; other site 521045003764 putative PBP binding loops; other site 521045003765 ABC-ATPase subunit interface; other site 521045003766 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 521045003767 dimer interface [polypeptide binding]; other site 521045003768 conserved gate region; other site 521045003769 putative PBP binding loops; other site 521045003770 ABC-ATPase subunit interface; other site 521045003771 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045003772 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045003773 Transcriptional regulators [Transcription]; Region: PurR; COG1609 521045003774 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 521045003775 DNA binding site [nucleotide binding] 521045003776 domain linker motif; other site 521045003777 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 521045003778 dimerization interface [polypeptide binding]; other site 521045003779 ligand binding site [chemical binding]; other site 521045003780 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 521045003781 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 521045003782 active site 521045003783 Isocitrate dehydrogenases [Energy production and conversion]; Region: Icd; COG0538 521045003784 isocitrate dehydrogenase; Validated; Region: PRK06451 521045003785 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 521045003786 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 521045003787 substrate binding site [chemical binding]; other site 521045003788 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 521045003789 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 521045003790 substrate binding site [chemical binding]; other site 521045003791 ligand binding site [chemical binding]; other site 521045003792 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1; cd06118 521045003793 dimer interface [polypeptide binding]; other site 521045003794 Citrate synthase; Region: Citrate_synt; pfam00285 521045003795 active site 521045003796 coenzyme A binding site [chemical binding]; other site 521045003797 citrylCoA binding site [chemical binding]; other site 521045003798 oxalacetate/citrate binding site [chemical binding]; other site 521045003799 catalytic triad [active] 521045003800 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 521045003801 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 521045003802 catalytic motif [active] 521045003803 Zn binding site [ion binding]; other site 521045003804 RibD C-terminal domain; Region: RibD_C; cl17279 521045003805 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 521045003806 Lumazine binding domain; Region: Lum_binding; pfam00677 521045003807 Lumazine binding domain; Region: Lum_binding; pfam00677 521045003808 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09318 521045003809 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 521045003810 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 521045003811 dimerization interface [polypeptide binding]; other site 521045003812 active site 521045003813 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 521045003814 homopentamer interface [polypeptide binding]; other site 521045003815 active site 521045003816 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 521045003817 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045003818 Zn2+ binding site [ion binding]; other site 521045003819 Mg2+ binding site [ion binding]; other site 521045003820 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 521045003821 Helix-turn-helix domain; Region: HTH_28; pfam13518 521045003822 putative transposase OrfB; Reviewed; Region: PHA02517 521045003823 Integrase core domain; Region: rve; pfam00665 521045003824 Integrase core domain; Region: rve_3; pfam13683 521045003825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045003826 Coenzyme A binding pocket [chemical binding]; other site 521045003827 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 521045003828 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 521045003829 putative active site [active] 521045003830 putative NTP binding site [chemical binding]; other site 521045003831 putative nucleic acid binding site [nucleotide binding]; other site 521045003832 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 521045003833 DNA-binding protein, stimulates sugar fermentation [General function prediction only]; Region: SfsA; COG1489 521045003834 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045003835 Coenzyme A binding pocket [chemical binding]; other site 521045003836 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 521045003837 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 521045003838 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 521045003839 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 521045003840 catalytic triad [active] 521045003841 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 521045003842 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 521045003843 ligand binding site [chemical binding]; other site 521045003844 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 521045003845 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 521045003846 Walker A/P-loop; other site 521045003847 ATP binding site [chemical binding]; other site 521045003848 Q-loop/lid; other site 521045003849 ABC transporter signature motif; other site 521045003850 Walker B; other site 521045003851 D-loop; other site 521045003852 H-loop/switch region; other site 521045003853 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 521045003854 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045003855 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 521045003856 TM-ABC transporter signature motif; other site 521045003857 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045003858 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 521045003859 TM-ABC transporter signature motif; other site 521045003860 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 521045003861 active site 521045003862 tetramer interface [polypeptide binding]; other site 521045003863 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 521045003864 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 521045003865 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; cl17221 521045003866 transmembrane helices; other site 521045003867 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 521045003868 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 521045003869 AAA domain; Region: AAA_14; pfam13173 521045003870 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 521045003871 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 521045003872 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 521045003873 active site 521045003874 metal binding site [ion binding]; metal-binding site 521045003875 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 521045003876 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 521045003877 active site 521045003878 DNA binding site [nucleotide binding] 521045003879 Phosphotransferase enzyme family; Region: APH; pfam01636 521045003880 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; cl17270 521045003881 active site 521045003882 ATP binding site [chemical binding]; other site 521045003883 substrate binding site [chemical binding]; other site 521045003884 Transposase IS200 like; Region: Y1_Tnp; pfam01797 521045003885 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 521045003886 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09701 521045003887 CRISPR-associated protein, Csx11 family; Region: cas_csx11; TIGR02682 521045003888 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 521045003889 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 521045003890 putative active site [active] 521045003891 putative metal binding site [ion binding]; other site 521045003892 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 521045003893 Transposase IS200 like; Region: Y1_Tnp; pfam01797 521045003894 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 521045003895 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 521045003896 non-specific DNA binding site [nucleotide binding]; other site 521045003897 salt bridge; other site 521045003898 sequence-specific DNA binding site [nucleotide binding]; other site 521045003899 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 521045003900 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045003901 Integrase core domain; Region: rve; pfam00665 521045003902 transposase/IS protein; Provisional; Region: PRK09183 521045003903 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 521045003904 Walker A motif; other site 521045003905 ATP binding site [chemical binding]; other site 521045003906 Walker B motif; other site 521045003907 arginine finger; other site 521045003908 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 521045003909 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 521045003910 NeuB family; Region: NeuB; pfam03102 521045003911 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 521045003912 NeuB binding interface [polypeptide binding]; other site 521045003913 putative substrate binding site [chemical binding]; other site 521045003914 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 521045003915 ligand binding site; other site 521045003916 tetramer interface; other site 521045003917 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 521045003918 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 521045003919 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 521045003920 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 521045003921 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 521045003922 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 521045003923 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521045003924 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 521045003925 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521045003926 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 521045003927 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 521045003928 Bacterial sugar transferase; Region: Bac_transf; pfam02397 521045003929 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 521045003930 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045003931 Integrase core domain; Region: rve; pfam00665 521045003932 transposase/IS protein; Provisional; Region: PRK09183 521045003933 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 521045003934 Walker A motif; other site 521045003935 ATP binding site [chemical binding]; other site 521045003936 Walker B motif; other site 521045003937 arginine finger; other site 521045003938 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 521045003939 putative active site [active] 521045003940 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 521045003941 four helix bundle protein; Region: TIGR02436 521045003942 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 521045003943 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 521045003944 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 521045003945 AAA ATPase domain; Region: AAA_16; pfam13191 521045003946 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 521045003947 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 521045003948 AAA domain; Region: AAA_14; pfam13173 521045003949 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 521045003950 PemK-like protein; Region: PemK; pfam02452 521045003951 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 521045003952 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 521045003953 non-specific DNA binding site [nucleotide binding]; other site 521045003954 salt bridge; other site 521045003955 sequence-specific DNA binding site [nucleotide binding]; other site 521045003956 Domain of unknown function (DUF955); Region: DUF955; pfam06114 521045003957 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 521045003958 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 521045003959 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 521045003960 putative active site [active] 521045003961 putative NTP binding site [chemical binding]; other site 521045003962 putative nucleic acid binding site [nucleotide binding]; other site 521045003963 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 521045003964 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 521045003965 PIN domain; Region: PIN_3; pfam13470 521045003966 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 521045003967 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 521045003968 Archaeal ATPase; Region: Arch_ATPase; pfam01637 521045003969 AAA domain; Region: AAA_14; pfam13173 521045003970 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 521045003971 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 521045003972 four helix bundle protein; Region: TIGR02436 521045003973 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 521045003974 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 521045003975 Domain of unknown function (DUF955); Region: DUF955; pfam06114 521045003976 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 521045003977 non-specific DNA binding site [nucleotide binding]; other site 521045003978 salt bridge; other site 521045003979 sequence-specific DNA binding site [nucleotide binding]; other site 521045003980 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 521045003981 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 521045003982 putative active site [active] 521045003983 Rop-like; Region: Rop-like; cl02247 521045003984 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 521045003985 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 521045003986 putative active site [active] 521045003987 putative NTP binding site [chemical binding]; other site 521045003988 putative nucleic acid binding site [nucleotide binding]; other site 521045003989 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 521045003990 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 521045003991 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 521045003992 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 521045003993 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 521045003994 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 521045003995 substrate binding pocket [chemical binding]; other site 521045003996 membrane-bound complex binding site; other site 521045003997 hinge residues; other site 521045003998 PAS domain S-box; Region: sensory_box; TIGR00229 521045003999 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 521045004000 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 521045004001 metal binding site [ion binding]; metal-binding site 521045004002 active site 521045004003 I-site; other site 521045004004 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045004005 Zn2+ binding site [ion binding]; other site 521045004006 Mg2+ binding site [ion binding]; other site 521045004007 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 521045004008 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 521045004009 Walker A/P-loop; other site 521045004010 ATP binding site [chemical binding]; other site 521045004011 Q-loop/lid; other site 521045004012 ABC transporter signature motif; other site 521045004013 Walker B; other site 521045004014 D-loop; other site 521045004015 H-loop/switch region; other site 521045004016 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 521045004017 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 521045004018 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 521045004019 ABC-2 type transporter; Region: ABC2_membrane; cl17235 521045004020 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 521045004021 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 521045004022 dimer interface [polypeptide binding]; other site 521045004023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045004024 catalytic residue [active] 521045004025 serine O-acetyltransferase; Region: cysE; TIGR01172 521045004026 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 521045004027 trimer interface [polypeptide binding]; other site 521045004028 active site 521045004029 substrate binding site [chemical binding]; other site 521045004030 CoA binding site [chemical binding]; other site 521045004031 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 521045004032 Domain of unknown function DUF20; Region: UPF0118; pfam01594 521045004033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 521045004034 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 521045004035 Uncharacterized conserved protein [Function unknown]; Region: COG3391 521045004036 Sds3-like; Region: Sds3; pfam08598 521045004037 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 521045004038 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 521045004039 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 521045004040 Peptidase family M23; Region: Peptidase_M23; pfam01551 521045004041 3D domain; Region: 3D; cl01439 521045004042 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 521045004043 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 521045004044 IHF dimer interface [polypeptide binding]; other site 521045004045 IHF - DNA interface [nucleotide binding]; other site 521045004046 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521045004047 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521045004048 EamA-like transporter family; Region: EamA; pfam00892 521045004049 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 521045004050 EamA-like transporter family; Region: EamA; pfam00892 521045004051 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 521045004052 Alkaline phosphatase homologues; Region: alkPPc; smart00098 521045004053 active site 521045004054 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 521045004055 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 521045004056 Zn binding site [ion binding]; other site 521045004057 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 521045004058 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 521045004059 active site 521045004060 homodimer interface [polypeptide binding]; other site 521045004061 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 521045004062 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 521045004063 dimer interface [polypeptide binding]; other site 521045004064 phosphorylation site [posttranslational modification] 521045004065 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 521045004066 ATP binding site [chemical binding]; other site 521045004067 Mg2+ binding site [ion binding]; other site 521045004068 G-X-G motif; other site 521045004069 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 521045004070 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 521045004071 active site 521045004072 substrate binding site [chemical binding]; other site 521045004073 metal binding site [ion binding]; metal-binding site 521045004074 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 521045004075 active site 521045004076 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 521045004077 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 521045004078 carboxyltransferase (CT) interaction site; other site 521045004079 biotinylation site [posttranslational modification]; other site 521045004080 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 521045004081 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 521045004082 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 521045004083 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 521045004084 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 521045004085 dimer interface [polypeptide binding]; other site 521045004086 substrate binding site [chemical binding]; other site 521045004087 metal binding site [ion binding]; metal-binding site 521045004088 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 521045004089 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 521045004090 Walker A; other site 521045004091 Udp N-acetylglucosamine O-acyltransferase; Domain 2; Region: Acetyltransf_11; pfam13720 521045004092 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 521045004093 B12 binding site [chemical binding]; other site 521045004094 cobalt ligand [ion binding]; other site 521045004095 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 521045004096 Helix-turn-helix domain; Region: HTH_28; pfam13518 521045004097 Transposase, Mutator family; Region: Transposase_mut; pfam00872 521045004098 MULE transposase domain; Region: MULE; pfam10551 521045004099 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 521045004100 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 521045004101 B12 binding site [chemical binding]; other site 521045004102 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 521045004103 FeS/SAM binding site; other site 521045004104 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 521045004105 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 521045004106 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521045004107 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521045004108 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 521045004109 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 521045004110 active site 521045004111 homodimer interface [polypeptide binding]; other site 521045004112 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 521045004113 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 521045004114 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521045004115 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521045004116 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 521045004117 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 521045004118 Mg++ binding site [ion binding]; other site 521045004119 putative catalytic motif [active] 521045004120 putative substrate binding site [chemical binding]; other site 521045004121 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 521045004122 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 521045004123 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521045004124 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 521045004125 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 521045004126 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 521045004127 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 521045004128 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521045004129 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 521045004130 GrpE; Region: GrpE; pfam01025 521045004131 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 521045004132 dimer interface [polypeptide binding]; other site 521045004133 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 521045004134 chaperone protein DnaJ; Provisional; Region: PRK14282 521045004135 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 521045004136 HSP70 interaction site [polypeptide binding]; other site 521045004137 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 521045004138 Zn binding sites [ion binding]; other site 521045004139 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 521045004140 dimer interface [polypeptide binding]; other site 521045004141 Uncharacterized conserved protein [Function unknown]; Region: COG1284 521045004142 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 521045004143 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 521045004144 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 521045004145 Glycoprotease family; Region: Peptidase_M22; pfam00814 521045004146 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 521045004147 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 521045004148 minor groove reading motif; other site 521045004149 helix-hairpin-helix signature motif; other site 521045004150 substrate binding pocket [chemical binding]; other site 521045004151 active site 521045004152 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 521045004153 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 521045004154 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 521045004155 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 521045004156 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 521045004157 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045004158 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 521045004159 dimer interface [polypeptide binding]; other site 521045004160 conserved gate region; other site 521045004161 putative PBP binding loops; other site 521045004162 ABC-ATPase subunit interface; other site 521045004163 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 521045004164 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 521045004165 dimer interface [polypeptide binding]; other site 521045004166 conserved gate region; other site 521045004167 putative PBP binding loops; other site 521045004168 ABC-ATPase subunit interface; other site 521045004169 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 521045004170 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045004171 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 521045004172 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 521045004173 active site 521045004174 catalytic residues [active] 521045004175 metal binding site [ion binding]; metal-binding site 521045004176 homodimer binding site [polypeptide binding]; other site 521045004177 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 521045004178 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 521045004179 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 521045004180 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 521045004181 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 521045004182 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 521045004183 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 521045004184 active site 521045004185 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 521045004186 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 521045004187 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 521045004188 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 521045004189 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 521045004190 NAD(P) binding site [chemical binding]; other site 521045004191 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 521045004192 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 521045004193 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 521045004194 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 521045004195 G1 box; other site 521045004196 putative GEF interaction site [polypeptide binding]; other site 521045004197 GTP/Mg2+ binding site [chemical binding]; other site 521045004198 Switch I region; other site 521045004199 G2 box; other site 521045004200 G3 box; other site 521045004201 Switch II region; other site 521045004202 G4 box; other site 521045004203 G5 box; other site 521045004204 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 521045004205 Translation-initiation factor 2; Region: IF-2; pfam11987 521045004206 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 521045004207 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 521045004208 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 521045004209 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 521045004210 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 521045004211 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 521045004212 active site 521045004213 metal binding site [ion binding]; metal-binding site 521045004214 homotetramer interface [polypeptide binding]; other site 521045004215 Thiamine pyrophosphokinase; Region: TPK; cd07995 521045004216 active site 521045004217 dimerization interface [polypeptide binding]; other site 521045004218 thiamine binding site [chemical binding]; other site 521045004219 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 521045004220 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 521045004221 Uncharacterized conserved protein [Function unknown]; Region: COG0062 521045004222 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 521045004223 putative substrate binding site [chemical binding]; other site 521045004224 putative ATP binding site [chemical binding]; other site 521045004225 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 521045004226 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 521045004227 Beta-Casp domain; Region: Beta-Casp; pfam10996 521045004228 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 521045004229 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 521045004230 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 521045004231 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 521045004232 metal ion-dependent adhesion site (MIDAS); other site 521045004233 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 521045004234 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045004235 Coenzyme A binding pocket [chemical binding]; other site 521045004236 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 521045004237 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 521045004238 putative catalytic cysteine [active] 521045004239 gamma-glutamyl kinase; Provisional; Region: PRK05429 521045004240 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 521045004241 nucleotide binding site [chemical binding]; other site 521045004242 homotetrameric interface [polypeptide binding]; other site 521045004243 putative phosphate binding site [ion binding]; other site 521045004244 putative allosteric binding site; other site 521045004245 PUA domain; Region: PUA; pfam01472 521045004246 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045004247 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 521045004248 conserved gate region; other site 521045004249 dimer interface [polypeptide binding]; other site 521045004250 putative PBP binding loops; other site 521045004251 ABC-ATPase subunit interface; other site 521045004252 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 521045004253 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 521045004254 putative PBP binding loops; other site 521045004255 dimer interface [polypeptide binding]; other site 521045004256 ABC-ATPase subunit interface; other site 521045004257 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521045004258 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 521045004259 Integrase core domain; Region: rve; pfam00665 521045004260 transposase/IS protein; Provisional; Region: PRK09183 521045004261 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 521045004262 Walker A motif; other site 521045004263 ATP binding site [chemical binding]; other site 521045004264 Walker B motif; other site 521045004265 arginine finger; other site 521045004266 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045004267 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 521045004268 DNA-binding interface [nucleotide binding]; DNA binding site 521045004269 Integrase core domain; Region: rve; pfam00665 521045004270 Integrase core domain; Region: rve_3; cl15866 521045004271 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 521045004272 HAMP domain; Region: HAMP; pfam00672 521045004273 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 521045004274 dimer interface [polypeptide binding]; other site 521045004275 phosphorylation site [posttranslational modification] 521045004276 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 521045004277 ATP binding site [chemical binding]; other site 521045004278 Mg2+ binding site [ion binding]; other site 521045004279 G-X-G motif; other site 521045004280 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 521045004281 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 521045004282 active site 521045004283 phosphorylation site [posttranslational modification] 521045004284 intermolecular recognition site; other site 521045004285 dimerization interface [polypeptide binding]; other site 521045004286 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 521045004287 DNA binding site [nucleotide binding] 521045004288 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 521045004289 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 521045004290 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 521045004291 putative substrate binding site [chemical binding]; other site 521045004292 nucleotide binding site [chemical binding]; other site 521045004293 nucleotide binding site [chemical binding]; other site 521045004294 homodimer interface [polypeptide binding]; other site 521045004295 ornithine carbamoyltransferase; Validated; Region: PRK02102 521045004296 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 521045004297 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 521045004298 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 521045004299 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 521045004300 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 521045004301 active site 521045004302 HIGH motif; other site 521045004303 KMSK motif region; other site 521045004304 tRNA binding surface [nucleotide binding]; other site 521045004305 DALR anticodon binding domain; Region: DALR_1; smart00836 521045004306 anticodon binding site; other site 521045004307 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 521045004308 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 521045004309 S-adenosylmethionine binding site [chemical binding]; other site 521045004310 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 521045004311 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 521045004312 active site 521045004313 dimerization interface [polypeptide binding]; other site 521045004314 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 521045004315 Interdomain contacts; other site 521045004316 Cytokine receptor motif; other site 521045004317 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 521045004318 Ubiquitin-like proteins; Region: UBQ; cl00155 521045004319 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 521045004320 Catalytic domain of Protein Kinases; Region: PKc; cd00180 521045004321 active site 521045004322 ATP binding site [chemical binding]; other site 521045004323 substrate binding site [chemical binding]; other site 521045004324 activation loop (A-loop); other site 521045004325 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 521045004326 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 521045004327 substrate binding pocket [chemical binding]; other site 521045004328 chain length determination region; other site 521045004329 substrate-Mg2+ binding site; other site 521045004330 catalytic residues [active] 521045004331 aspartate-rich region 1; other site 521045004332 active site lid residues [active] 521045004333 aspartate-rich region 2; other site 521045004334 Bifunctional nuclease; Region: DNase-RNase; pfam02577 521045004335 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 521045004336 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 521045004337 putative acyl-acceptor binding pocket; other site 521045004338 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 521045004339 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 521045004340 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 521045004341 Ligand Binding Site [chemical binding]; other site 521045004342 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 521045004343 binding surface 521045004344 TPR motif; other site 521045004345 TPR repeat; Region: TPR_11; pfam13414 521045004346 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 521045004347 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 521045004348 B12 binding site [chemical binding]; other site 521045004349 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 521045004350 FeS/SAM binding site; other site 521045004351 Predicted amidohydrolase [General function prediction only]; Region: COG0388 521045004352 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 521045004353 active site 521045004354 catalytic triad [active] 521045004355 dimer interface [polypeptide binding]; other site 521045004356 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 521045004357 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 521045004358 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 521045004359 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 521045004360 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 521045004361 23S rRNA binding site [nucleotide binding]; other site 521045004362 L21 binding site [polypeptide binding]; other site 521045004363 L13 binding site [polypeptide binding]; other site 521045004364 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 521045004365 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 521045004366 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 521045004367 Walker A motif; other site 521045004368 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 521045004369 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 521045004370 pullulanase, type I; Region: pulA_typeI; TIGR02104 521045004371 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 521045004372 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 521045004373 Ca binding site [ion binding]; other site 521045004374 active site 521045004375 catalytic site [active] 521045004376 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 521045004377 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 521045004378 dimer interface [polypeptide binding]; other site 521045004379 active site 521045004380 glycine-pyridoxal phosphate binding site [chemical binding]; other site 521045004381 folate binding site [chemical binding]; other site 521045004382 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521045004383 active site 521045004384 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 521045004385 Starch binding domain; Region: CBM_2; smart01065 521045004386 starch-binding site 1 [chemical binding]; other site 521045004387 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 521045004388 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 521045004389 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 521045004390 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 521045004391 putative active site [active] 521045004392 catalytic site [active] 521045004393 DOMON-like domain of various glycoside hydrolases; Region: DOMON_glucodextranase_like; cd09626 521045004394 putative ligand binding site [chemical binding]; other site 521045004395 thymidine kinase; Provisional; Region: PRK04296 521045004396 signal recognition particle protein; Provisional; Region: PRK10867 521045004397 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 521045004398 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 521045004399 P loop; other site 521045004400 GTP binding site [chemical binding]; other site 521045004401 Signal peptide binding domain; Region: SRP_SPB; pfam02978 521045004402 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14524 521045004403 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 521045004404 KH domain; Region: KH_4; pfam13083 521045004405 G-X-X-G motif; other site 521045004406 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 521045004407 RimM N-terminal domain; Region: RimM; pfam01782 521045004408 PRC-barrel domain; Region: PRC; pfam05239 521045004409 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 521045004410 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 521045004411 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 521045004412 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 521045004413 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 521045004414 Catalytic site [active] 521045004415 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 521045004416 putative GTP cyclohydrolase; Provisional; Region: PRK13674 521045004417 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 521045004418 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 521045004419 Predicted methyltransferases [General function prediction only]; Region: COG0313 521045004420 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 521045004421 putative SAM binding site [chemical binding]; other site 521045004422 putative homodimer interface [polypeptide binding]; other site 521045004423 Peptidase family M50; Region: Peptidase_M50; pfam02163 521045004424 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 521045004425 putative substrate binding region [chemical binding]; other site 521045004426 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 521045004427 DHH family; Region: DHH; pfam01368 521045004428 DHHA1 domain; Region: DHHA1; pfam02272 521045004429 purine nucleoside phosphorylase; Provisional; Region: PRK08202 521045004430 acyl carrier protein; Provisional; Region: acpP; PRK00982 521045004431 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 521045004432 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 521045004433 RNA binding surface [nucleotide binding]; other site 521045004434 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 521045004435 active site 521045004436 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 521045004437 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 521045004438 PEGA domain; Region: PEGA; pfam08308 521045004439 PEGA domain; Region: PEGA; pfam08308 521045004440 PEGA domain; Region: PEGA; pfam08308 521045004441 PEGA domain; Region: PEGA; pfam08308 521045004442 PEGA domain; Region: PEGA; pfam08308 521045004443 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 521045004444 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 521045004445 RNA binding surface [nucleotide binding]; other site 521045004446 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 521045004447 active site 521045004448 uracil binding [chemical binding]; other site 521045004449 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 521045004450 DHH family; Region: DHH; pfam01368 521045004451 DHHA1 domain; Region: DHHA1; pfam02272 521045004452 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 521045004453 rod shape-determining protein MreB; Provisional; Region: PRK13930 521045004454 MreB and similar proteins; Region: MreB_like; cd10225 521045004455 nucleotide binding site [chemical binding]; other site 521045004456 Mg binding site [ion binding]; other site 521045004457 putative protofilament interaction site [polypeptide binding]; other site 521045004458 RodZ interaction site [polypeptide binding]; other site 521045004459 Domain of unknown function (DUF368); Region: DUF368; pfam04018 521045004460 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 521045004461 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 521045004462 Walker A/P-loop; other site 521045004463 ATP binding site [chemical binding]; other site 521045004464 Q-loop/lid; other site 521045004465 ABC transporter signature motif; other site 521045004466 Walker B; other site 521045004467 D-loop; other site 521045004468 H-loop/switch region; other site 521045004469 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 521045004470 FeS assembly protein SufB; Region: sufB; TIGR01980 521045004471 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 521045004472 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 521045004473 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 521045004474 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 521045004475 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 521045004476 catalytic residue [active] 521045004477 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 521045004478 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 521045004479 trimerization site [polypeptide binding]; other site 521045004480 active site 521045004481 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 521045004482 DNA-binding site [nucleotide binding]; DNA binding site 521045004483 RNA-binding motif; other site 521045004484 aspartate aminotransferase; Provisional; Region: PRK07568 521045004485 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 521045004486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045004487 homodimer interface [polypeptide binding]; other site 521045004488 catalytic residue [active] 521045004489 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 521045004490 metal ion-dependent adhesion site (MIDAS); other site 521045004491 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 521045004492 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 521045004493 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 521045004494 metal ion-dependent adhesion site (MIDAS); other site 521045004495 Immunoglobulin domain; Region: Ig; cl11960 521045004496 Family description; Region: VCBS; pfam13517 521045004497 PEGA domain; Region: PEGA; pfam08308 521045004498 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 521045004499 metal ion-dependent adhesion site (MIDAS); other site 521045004500 Tetratricopeptide repeat; Region: TPR_15; pfam13429 521045004501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 521045004502 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 521045004503 binding surface 521045004504 TPR motif; other site 521045004505 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 521045004506 binding surface 521045004507 TPR motif; other site 521045004508 TPR repeat; Region: TPR_11; pfam13414 521045004509 Preprotein translocase SecG subunit; Region: SecG; pfam03840 521045004510 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 521045004511 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 521045004512 active site 521045004513 HIGH motif; other site 521045004514 dimer interface [polypeptide binding]; other site 521045004515 KMSKS motif; other site 521045004516 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 521045004517 RNA binding surface [nucleotide binding]; other site 521045004518 S-layer homology domain; Region: SLH; pfam00395 521045004519 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045004520 Integrase core domain; Region: rve; pfam00665 521045004521 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045004522 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 521045004523 DNA-binding interface [nucleotide binding]; DNA binding site 521045004524 Integrase core domain; Region: rve; pfam00665 521045004525 transposase/IS protein; Provisional; Region: PRK09183 521045004526 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 521045004527 Walker A motif; other site 521045004528 ATP binding site [chemical binding]; other site 521045004529 Walker B motif; other site 521045004530 arginine finger; other site 521045004531 transposase/IS protein; Provisional; Region: PRK09183 521045004532 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 521045004533 Walker A motif; other site 521045004534 ATP binding site [chemical binding]; other site 521045004535 Walker B motif; other site 521045004536 arginine finger; other site 521045004537 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 521045004538 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 521045004539 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 521045004540 dimer interface [polypeptide binding]; other site 521045004541 conserved gate region; other site 521045004542 putative PBP binding loops; other site 521045004543 ABC-ATPase subunit interface; other site 521045004544 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 521045004545 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 521045004546 dimer interface [polypeptide binding]; other site 521045004547 conserved gate region; other site 521045004548 putative PBP binding loops; other site 521045004549 ABC-ATPase subunit interface; other site 521045004550 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 521045004551 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 521045004552 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 521045004553 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 521045004554 Walker A/P-loop; other site 521045004555 ATP binding site [chemical binding]; other site 521045004556 Q-loop/lid; other site 521045004557 ABC transporter signature motif; other site 521045004558 Walker B; other site 521045004559 D-loop; other site 521045004560 H-loop/switch region; other site 521045004561 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 521045004562 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 521045004563 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 521045004564 Walker A/P-loop; other site 521045004565 ATP binding site [chemical binding]; other site 521045004566 Q-loop/lid; other site 521045004567 ABC transporter signature motif; other site 521045004568 Walker B; other site 521045004569 D-loop; other site 521045004570 H-loop/switch region; other site 521045004571 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 521045004572 alanine-tRNA ligase; Region: PLN02961 521045004573 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 521045004574 replicative DNA helicase; Region: DnaB; TIGR00665 521045004575 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 521045004576 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 521045004577 Walker A motif; other site 521045004578 ATP binding site [chemical binding]; other site 521045004579 Walker B motif; other site 521045004580 DNA binding loops [nucleotide binding] 521045004581 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 521045004582 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 521045004583 Walker A/P-loop; other site 521045004584 ATP binding site [chemical binding]; other site 521045004585 Q-loop/lid; other site 521045004586 ABC transporter signature motif; other site 521045004587 Walker B; other site 521045004588 D-loop; other site 521045004589 H-loop/switch region; other site 521045004590 Violaxanthin de-epoxidase (VDE); Region: VDE; cl06253 521045004591 O-Antigen ligase; Region: Wzy_C; pfam04932 521045004592 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 521045004593 Septum formation topological specificity factor MinE; Region: MinE; cl00538 521045004594 septum site-determining protein MinD; Region: minD_bact; TIGR01968 521045004595 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 521045004596 Switch I; other site 521045004597 Switch II; other site 521045004598 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 521045004599 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 521045004600 putative RNA binding site [nucleotide binding]; other site 521045004601 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 521045004602 S-adenosylmethionine binding site [chemical binding]; other site 521045004603 1,3-propanediol dehydrogenase-like (PPD); Region: PPD-like; cd08181 521045004604 dimer interface [polypeptide binding]; other site 521045004605 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 521045004606 active site 521045004607 metal binding site [ion binding]; metal-binding site 521045004608 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 521045004609 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04135 521045004610 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 521045004611 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 521045004612 Competence protein; Region: Competence; pfam03772 521045004613 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 521045004614 metal binding site 2 [ion binding]; metal-binding site 521045004615 putative DNA binding helix; other site 521045004616 metal binding site 1 [ion binding]; metal-binding site 521045004617 dimer interface [polypeptide binding]; other site 521045004618 structural Zn2+ binding site [ion binding]; other site 521045004619 transcription termination factor NusA; Region: NusA; TIGR01953 521045004620 NusA N-terminal domain; Region: NusA_N; pfam08529 521045004621 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 521045004622 RNA binding site [nucleotide binding]; other site 521045004623 homodimer interface [polypeptide binding]; other site 521045004624 NusA-like KH domain; Region: KH_5; pfam13184 521045004625 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 521045004626 G-X-X-G motif; other site 521045004627 ribosome maturation protein RimP; Reviewed; Region: PRK00092 521045004628 Sm and related proteins; Region: Sm_like; cl00259 521045004629 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 521045004630 putative oligomer interface [polypeptide binding]; other site 521045004631 putative RNA binding site [nucleotide binding]; other site 521045004632 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 521045004633 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 521045004634 substrate binding pocket [chemical binding]; other site 521045004635 membrane-bound complex binding site; other site 521045004636 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 521045004637 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 521045004638 dimer interface [polypeptide binding]; other site 521045004639 conserved gate region; other site 521045004640 putative PBP binding loops; other site 521045004641 ABC-ATPase subunit interface; other site 521045004642 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 521045004643 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 521045004644 Walker A/P-loop; other site 521045004645 ATP binding site [chemical binding]; other site 521045004646 Q-loop/lid; other site 521045004647 ABC transporter signature motif; other site 521045004648 Walker B; other site 521045004649 D-loop; other site 521045004650 H-loop/switch region; other site 521045004651 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 521045004652 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 521045004653 putative phosphate acyltransferase; Provisional; Region: PRK05331 521045004654 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 521045004655 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 521045004656 glutaminase active site [active] 521045004657 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 521045004658 dimer interface [polypeptide binding]; other site 521045004659 active site 521045004660 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 521045004661 dimer interface [polypeptide binding]; other site 521045004662 active site 521045004663 Oligomerisation domain; Region: Oligomerisation; pfam02410 521045004664 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 521045004665 rRNA interaction site [nucleotide binding]; other site 521045004666 S8 interaction site; other site 521045004667 putative laminin-1 binding site; other site 521045004668 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14330 521045004669 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 521045004670 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 521045004671 FeS/SAM binding site; other site 521045004672 TRAM domain; Region: TRAM; pfam01938 521045004673 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 521045004674 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 521045004675 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 521045004676 tetramerization interface [polypeptide binding]; other site 521045004677 active site 521045004678 hypothetical protein; Provisional; Region: PRK13670 521045004679 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 521045004680 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 521045004681 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 521045004682 ATP binding site [chemical binding]; other site 521045004683 putative Mg++ binding site [ion binding]; other site 521045004684 helicase superfamily c-terminal domain; Region: HELICc; smart00490 521045004685 nucleotide binding region [chemical binding]; other site 521045004686 ATP-binding site [chemical binding]; other site 521045004687 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 521045004688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045004689 Walker A/P-loop; other site 521045004690 ATP binding site [chemical binding]; other site 521045004691 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 521045004692 Q-loop/lid; other site 521045004693 ABC transporter signature motif; other site 521045004694 Walker B; other site 521045004695 D-loop; other site 521045004696 H-loop/switch region; other site 521045004697 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 521045004698 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 521045004699 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 521045004700 Walker A/P-loop; other site 521045004701 ATP binding site [chemical binding]; other site 521045004702 Q-loop/lid; other site 521045004703 ABC transporter signature motif; other site 521045004704 Walker B; other site 521045004705 D-loop; other site 521045004706 H-loop/switch region; other site 521045004707 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 521045004708 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 521045004709 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 521045004710 dimer interface [polypeptide binding]; other site 521045004711 conserved gate region; other site 521045004712 putative PBP binding loops; other site 521045004713 ABC-ATPase subunit interface; other site 521045004714 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 521045004715 Bacterial sugar transferase; Region: Bac_transf; cl00939 521045004716 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 521045004717 dimer interface [polypeptide binding]; other site 521045004718 conserved gate region; other site 521045004719 putative PBP binding loops; other site 521045004720 ABC-ATPase subunit interface; other site 521045004721 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 521045004722 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 521045004723 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045004724 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 521045004725 TM-ABC transporter signature motif; other site 521045004726 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045004727 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 521045004728 TM-ABC transporter signature motif; other site 521045004729 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 521045004730 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 521045004731 Walker A/P-loop; other site 521045004732 ATP binding site [chemical binding]; other site 521045004733 Q-loop/lid; other site 521045004734 ABC transporter signature motif; other site 521045004735 Walker B; other site 521045004736 D-loop; other site 521045004737 H-loop/switch region; other site 521045004738 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 521045004739 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 521045004740 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 521045004741 ligand binding site [chemical binding]; other site 521045004742 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 521045004743 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 521045004744 ATP-binding site [chemical binding]; other site 521045004745 Sugar specificity; other site 521045004746 Pyrimidine base specificity; other site 521045004747 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 521045004748 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 521045004749 CoA binding domain; Region: CoA_binding; pfam02629 521045004750 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 521045004751 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 521045004752 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 521045004753 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 521045004754 FeS/SAM binding site; other site 521045004755 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 521045004756 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 521045004757 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 521045004758 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 521045004759 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 521045004760 hexamer interface [polypeptide binding]; other site 521045004761 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 521045004762 Walker A motif; other site 521045004763 ATP binding site [chemical binding]; other site 521045004764 Walker B motif; other site 521045004765 Uncharacterized protein conserved in bacteria [General function prediction only]; Region: OraA; COG2137 521045004766 phosphodiesterase; Provisional; Region: PRK12704 521045004767 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045004768 Zn2+ binding site [ion binding]; other site 521045004769 Mg2+ binding site [ion binding]; other site 521045004770 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 521045004771 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 521045004772 Ligand Binding Site [chemical binding]; other site 521045004773 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 521045004774 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 521045004775 Walker A motif; other site 521045004776 ATP binding site [chemical binding]; other site 521045004777 Walker B motif; other site 521045004778 arginine finger; other site 521045004779 Peptidase family M41; Region: Peptidase_M41; pfam01434 521045004780 Predicted thioesterase [General function prediction only]; Region: COG5496 521045004781 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 521045004782 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 521045004783 FeS/SAM binding site; other site 521045004784 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 521045004785 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 521045004786 active site 521045004787 phosphorylation site [posttranslational modification] 521045004788 intermolecular recognition site; other site 521045004789 dimerization interface [polypeptide binding]; other site 521045004790 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 521045004791 DNA binding site [nucleotide binding] 521045004792 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 521045004793 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 521045004794 putative active site [active] 521045004795 heme pocket [chemical binding]; other site 521045004796 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 521045004797 dimer interface [polypeptide binding]; other site 521045004798 phosphorylation site [posttranslational modification] 521045004799 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 521045004800 ATP binding site [chemical binding]; other site 521045004801 Mg2+ binding site [ion binding]; other site 521045004802 G-X-G motif; other site 521045004803 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 521045004804 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 521045004805 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 521045004806 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 521045004807 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 521045004808 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 521045004809 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 521045004810 elongation factor G; Reviewed; Region: PRK12740 521045004811 G1 box; other site 521045004812 putative GEF interaction site [polypeptide binding]; other site 521045004813 GTP/Mg2+ binding site [chemical binding]; other site 521045004814 Switch I region; other site 521045004815 G2 box; other site 521045004816 G3 box; other site 521045004817 Switch II region; other site 521045004818 G4 box; other site 521045004819 G5 box; other site 521045004820 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 521045004821 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 521045004822 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 521045004823 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 521045004824 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 521045004825 active site 521045004826 catalytic site [active] 521045004827 Protein of unknown function (DUF503); Region: DUF503; pfam04456 521045004828 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 521045004829 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 521045004830 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 521045004831 FtsX-like permease family; Region: FtsX; pfam02687 521045004832 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 521045004833 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 521045004834 Walker A/P-loop; other site 521045004835 ATP binding site [chemical binding]; other site 521045004836 Q-loop/lid; other site 521045004837 ABC transporter signature motif; other site 521045004838 Walker B; other site 521045004839 D-loop; other site 521045004840 H-loop/switch region; other site 521045004841 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 521045004842 GAF domain; Region: GAF_2; pfam13185 521045004843 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 521045004844 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 521045004845 dimer interface [polypeptide binding]; other site 521045004846 active site 521045004847 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 521045004848 catalytic residues [active] 521045004849 substrate binding site [chemical binding]; other site 521045004850 Rhomboid family; Region: Rhomboid; pfam01694 521045004851 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 521045004852 Domain of unknown function (DUF814); Region: DUF814; pfam05670 521045004853 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 521045004854 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 521045004855 Predicted phosphoesterase (MutT family) [General function prediction only]; Region: COG4112 521045004856 DHH family; Region: DHH; pfam01368 521045004857 FOG: CBS domain [General function prediction only]; Region: COG0517 521045004858 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 521045004859 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 521045004860 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 521045004861 active site 521045004862 NTP binding site [chemical binding]; other site 521045004863 metal binding triad [ion binding]; metal-binding site 521045004864 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 521045004865 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 521045004866 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 521045004867 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 521045004868 active site 521045004869 phosphorylation site [posttranslational modification] 521045004870 intermolecular recognition site; other site 521045004871 dimerization interface [polypeptide binding]; other site 521045004872 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 521045004873 Walker A motif; other site 521045004874 ATP binding site [chemical binding]; other site 521045004875 Walker B motif; other site 521045004876 arginine finger; other site 521045004877 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 521045004878 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 521045004879 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 521045004880 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 521045004881 ATP binding site [chemical binding]; other site 521045004882 Mg2+ binding site [ion binding]; other site 521045004883 G-X-G motif; other site 521045004884 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 521045004885 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 521045004886 putative active site [active] 521045004887 GIY-YIG motif/motif A; other site 521045004888 putative metal binding site [ion binding]; other site 521045004889 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 521045004890 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 521045004891 dimer interface [polypeptide binding]; other site 521045004892 active site 521045004893 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 521045004894 substrate binding site [chemical binding]; other site 521045004895 catalytic residue [active] 521045004896 FOG: CBS domain [General function prediction only]; Region: COG0517 521045004897 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 521045004898 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 521045004899 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 521045004900 transmembrane helices; other site 521045004901 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 521045004902 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 521045004903 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 521045004904 protein binding site [polypeptide binding]; other site 521045004905 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 521045004906 protein binding site [polypeptide binding]; other site 521045004907 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 521045004908 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 521045004909 Walker A/P-loop; other site 521045004910 ATP binding site [chemical binding]; other site 521045004911 Q-loop/lid; other site 521045004912 ABC transporter signature motif; other site 521045004913 Walker B; other site 521045004914 D-loop; other site 521045004915 H-loop/switch region; other site 521045004916 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 521045004917 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 521045004918 ABC-ATPase subunit interface; other site 521045004919 dimer interface [polypeptide binding]; other site 521045004920 putative PBP binding regions; other site 521045004921 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 521045004922 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 521045004923 intersubunit interface [polypeptide binding]; other site 521045004924 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 521045004925 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 521045004926 ATP binding site [chemical binding]; other site 521045004927 Mg2+ binding site [ion binding]; other site 521045004928 G-X-G motif; other site 521045004929 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 521045004930 ATP binding site [chemical binding]; other site 521045004931 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 521045004932 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 521045004933 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 521045004934 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 521045004935 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; cl00258 521045004936 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 521045004937 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 521045004938 motif 1; other site 521045004939 active site 521045004940 motif 2; other site 521045004941 motif 3; other site 521045004942 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 521045004943 DHHA1 domain; Region: DHHA1; pfam02272 521045004944 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 521045004945 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 521045004946 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 521045004947 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 521045004948 catalytic residue [active] 521045004949 putative FPP diphosphate binding site; other site 521045004950 putative FPP binding hydrophobic cleft; other site 521045004951 dimer interface [polypeptide binding]; other site 521045004952 putative IPP diphosphate binding site; other site 521045004953 ribosome recycling factor; Reviewed; Region: frr; PRK00083 521045004954 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 521045004955 hinge region; other site 521045004956 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 521045004957 protein-export membrane protein SecD; Region: secD; TIGR01129 521045004958 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 521045004959 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 521045004960 Protein export membrane protein; Region: SecD_SecF; pfam02355 521045004961 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 521045004962 PLD-like domain; Region: PLDc_2; pfam13091 521045004963 putative active site [active] 521045004964 catalytic site [active] 521045004965 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 521045004966 PLD-like domain; Region: PLDc_2; pfam13091 521045004967 putative active site [active] 521045004968 catalytic site [active] 521045004969 NAD synthetase; Provisional; Region: PRK13981 521045004970 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 521045004971 multimer interface [polypeptide binding]; other site 521045004972 active site 521045004973 catalytic triad [active] 521045004974 protein interface 1 [polypeptide binding]; other site 521045004975 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 521045004976 homodimer interface [polypeptide binding]; other site 521045004977 NAD binding pocket [chemical binding]; other site 521045004978 ATP binding pocket [chemical binding]; other site 521045004979 Mg binding site [ion binding]; other site 521045004980 active-site loop [active] 521045004981 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 521045004982 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 521045004983 active site 521045004984 motif I; other site 521045004985 motif II; other site 521045004986 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 521045004987 PAS domain; Region: PAS; smart00091 521045004988 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 521045004989 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 521045004990 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 521045004991 putative active site [active] 521045004992 heme pocket [chemical binding]; other site 521045004993 PAS fold; Region: PAS_4; pfam08448 521045004994 Esterase/lipase [General function prediction only]; Region: COG1647 521045004995 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 521045004996 tetramer interface [polypeptide binding]; other site 521045004997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045004998 catalytic residue [active] 521045004999 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 521045005000 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 521045005001 tetramer interface [polypeptide binding]; other site 521045005002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045005003 catalytic residue [active] 521045005004 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 521045005005 lipoyl attachment site [posttranslational modification]; other site 521045005006 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 521045005007 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 521045005008 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 521045005009 6-phosphofructokinase; Provisional; Region: PRK03202 521045005010 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 521045005011 active site 521045005012 ADP/pyrophosphate binding site [chemical binding]; other site 521045005013 dimerization interface [polypeptide binding]; other site 521045005014 allosteric effector site; other site 521045005015 fructose-1,6-bisphosphate binding site; other site 521045005016 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 521045005017 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; cl17342 521045005018 domain interfaces; other site 521045005019 active site 521045005020 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 521045005021 oligomerisation interface [polypeptide binding]; other site 521045005022 mobile loop; other site 521045005023 roof hairpin; other site 521045005024 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 521045005025 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 521045005026 ring oligomerisation interface [polypeptide binding]; other site 521045005027 ATP/Mg binding site [chemical binding]; other site 521045005028 stacking interactions; other site 521045005029 hinge regions; other site 521045005030 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 521045005031 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 521045005032 Ligand binding site; other site 521045005033 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521045005034 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 521045005035 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 521045005036 active site 521045005037 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 521045005038 homodimer interface [polypeptide binding]; other site 521045005039 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 521045005040 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521045005041 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 521045005042 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 521045005043 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 521045005044 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 521045005045 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 521045005046 integral membrane protein MviN; Region: mviN; TIGR01695 521045005047 Transcriptional regulators [Transcription]; Region: MarR; COG1846 521045005048 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 521045005049 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 521045005050 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 521045005051 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 521045005052 inhibitor-cofactor binding pocket; inhibition site 521045005053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045005054 catalytic residue [active] 521045005055 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 521045005056 putative trimer interface [polypeptide binding]; other site 521045005057 putative CoA binding site [chemical binding]; other site 521045005058 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 521045005059 putative trimer interface [polypeptide binding]; other site 521045005060 putative active site [active] 521045005061 putative substrate binding site [chemical binding]; other site 521045005062 putative CoA binding site [chemical binding]; other site 521045005063 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 521045005064 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 521045005065 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 521045005066 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 521045005067 four helix bundle protein; Region: TIGR02436 521045005068 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 521045005069 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 521045005070 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 521045005071 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 521045005072 intersubunit interface [polypeptide binding]; other site 521045005073 active site 521045005074 Zn2+ binding site [ion binding]; other site 521045005075 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 521045005076 16S/18S rRNA binding site [nucleotide binding]; other site 521045005077 S13e-L30e interaction site [polypeptide binding]; other site 521045005078 25S rRNA binding site [nucleotide binding]; other site 521045005079 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 521045005080 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 521045005081 RNase E interface [polypeptide binding]; other site 521045005082 trimer interface [polypeptide binding]; other site 521045005083 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 521045005084 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 521045005085 RNase E interface [polypeptide binding]; other site 521045005086 trimer interface [polypeptide binding]; other site 521045005087 active site 521045005088 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 521045005089 RNA binding site [nucleotide binding]; other site 521045005090 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 521045005091 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 521045005092 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 521045005093 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 521045005094 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045005095 Coenzyme A binding pocket [chemical binding]; other site 521045005096 pantoate--beta-alanine ligase; Region: panC; TIGR00018 521045005097 Pantoate-beta-alanine ligase; Region: PanC; cd00560 521045005098 active site 521045005099 ATP-binding site [chemical binding]; other site 521045005100 pantoate-binding site; other site 521045005101 HXXH motif; other site 521045005102 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 521045005103 ligand binding site [chemical binding]; other site 521045005104 flexible hinge region; other site 521045005105 Tetratricopeptide repeat; Region: TPR_6; pfam13174 521045005106 Tetratricopeptide repeat; Region: TPR_16; pfam13432 521045005107 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 521045005108 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 521045005109 ligand binding site [chemical binding]; other site 521045005110 flexible hinge region; other site 521045005111 propionate/acetate kinase; Provisional; Region: PRK12379 521045005112 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 521045005113 nucleotide binding site [chemical binding]; other site 521045005114 butyrate kinase; Provisional; Region: PRK03011 521045005115 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 521045005116 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 521045005117 intersubunit interface [polypeptide binding]; other site 521045005118 active site 521045005119 zinc binding site [ion binding]; other site 521045005120 Na+ binding site [ion binding]; other site 521045005121 DNA protecting protein DprA; Region: dprA; TIGR00732 521045005122 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 521045005123 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 521045005124 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 521045005125 Walker A motif; other site 521045005126 ATP binding site [chemical binding]; other site 521045005127 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 521045005128 Walker B motif; other site 521045005129 arginine finger; other site 521045005130 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 521045005131 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 521045005132 active site 521045005133 HslU subunit interaction site [polypeptide binding]; other site 521045005134 D-alanyl-alanine synthetase A; Provisional; Region: PRK14571 521045005135 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 521045005136 ATP-grasp domain; Region: ATP-grasp_4; cl17255 521045005137 DNA topoisomerase I; Validated; Region: PRK05582 521045005138 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 521045005139 active site 521045005140 interdomain interaction site; other site 521045005141 putative metal-binding site [ion binding]; other site 521045005142 nucleotide binding site [chemical binding]; other site 521045005143 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 521045005144 domain I; other site 521045005145 DNA binding groove [nucleotide binding] 521045005146 phosphate binding site [ion binding]; other site 521045005147 domain II; other site 521045005148 domain III; other site 521045005149 nucleotide binding site [chemical binding]; other site 521045005150 catalytic site [active] 521045005151 domain IV; other site 521045005152 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 521045005153 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 521045005154 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 521045005155 generic binding surface I; other site 521045005156 generic binding surface II; other site 521045005157 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 521045005158 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045005159 Zn2+ binding site [ion binding]; other site 521045005160 Mg2+ binding site [ion binding]; other site 521045005161 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 521045005162 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 521045005163 active site 521045005164 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 521045005165 dimer interface [polypeptide binding]; other site 521045005166 substrate binding site [chemical binding]; other site 521045005167 catalytic residues [active] 521045005168 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 521045005169 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 521045005170 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 521045005171 active site 521045005172 motif I; other site 521045005173 motif II; other site 521045005174 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 521045005175 carbohydrate binding site [chemical binding]; other site 521045005176 pullulanase, type I; Region: pulA_typeI; TIGR02104 521045005177 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 521045005178 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 521045005179 Ca binding site [ion binding]; other site 521045005180 active site 521045005181 catalytic site [active] 521045005182 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 521045005183 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 521045005184 MPT binding site; other site 521045005185 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 521045005186 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 521045005187 Substrate-binding site [chemical binding]; other site 521045005188 Substrate specificity [chemical binding]; other site 521045005189 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 521045005190 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 521045005191 Substrate-binding site [chemical binding]; other site 521045005192 Substrate specificity [chemical binding]; other site 521045005193 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 521045005194 FOG: WD40-like repeat [Function unknown]; Region: COG1520 521045005195 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 521045005196 Trp docking motif [polypeptide binding]; other site 521045005197 active site 521045005198 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_12; cd13142 521045005199 putative efflux protein, MATE family; Region: matE; TIGR00797 521045005200 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 521045005201 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 521045005202 FeS/SAM binding site; other site 521045005203 Integrase core domain; Region: rve; pfam00665 521045005204 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 521045005205 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 521045005206 substrate binding pocket [chemical binding]; other site 521045005207 membrane-bound complex binding site; other site 521045005208 hinge residues; other site 521045005209 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 521045005210 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 521045005211 dimer interface [polypeptide binding]; other site 521045005212 conserved gate region; other site 521045005213 ABC-ATPase subunit interface; other site 521045005214 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 521045005215 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 521045005216 Walker A/P-loop; other site 521045005217 ATP binding site [chemical binding]; other site 521045005218 Q-loop/lid; other site 521045005219 ABC transporter signature motif; other site 521045005220 Walker B; other site 521045005221 D-loop; other site 521045005222 H-loop/switch region; other site 521045005223 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 521045005224 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 521045005225 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 521045005226 active site 521045005227 catalytic tetrad [active] 521045005228 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 521045005229 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 521045005230 homodimer interface [polypeptide binding]; other site 521045005231 NAD binding pocket [chemical binding]; other site 521045005232 ATP binding pocket [chemical binding]; other site 521045005233 Mg binding site [ion binding]; other site 521045005234 active-site loop [active] 521045005235 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 521045005236 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 521045005237 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 521045005238 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 521045005239 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 521045005240 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 521045005241 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 521045005242 intersubunit interface [polypeptide binding]; other site 521045005243 active site 521045005244 catalytic residue [active] 521045005245 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 521045005246 Zn2+ binding site [ion binding]; other site 521045005247 Mg2+ binding site [ion binding]; other site 521045005248 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 521045005249 active site 521045005250 dimer interface [polypeptide binding]; other site 521045005251 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 521045005252 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 521045005253 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 521045005254 ApbE family; Region: ApbE; pfam02424 521045005255 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 521045005256 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 521045005257 FeS/SAM binding site; other site 521045005258 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 521045005259 AMMECR1; Region: AMMECR1; pfam01871 521045005260 6-phosphofructokinase; Provisional; Region: PRK03202 521045005261 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 521045005262 active site 521045005263 ADP/pyrophosphate binding site [chemical binding]; other site 521045005264 dimerization interface [polypeptide binding]; other site 521045005265 allosteric effector site; other site 521045005266 fructose-1,6-bisphosphate binding site; other site 521045005267 ribonuclease R; Region: RNase_R; TIGR02063 521045005268 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 521045005269 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 521045005270 RNB domain; Region: RNB; pfam00773 521045005271 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 521045005272 RNA binding site [nucleotide binding]; other site 521045005273 TPR repeat; Region: TPR_11; pfam13414 521045005274 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 521045005275 TPR motif; other site 521045005276 binding surface 521045005277 TPR repeat; Region: TPR_11; pfam13414 521045005278 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 521045005279 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 521045005280 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 521045005281 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 521045005282 non-specific DNA binding site [nucleotide binding]; other site 521045005283 salt bridge; other site 521045005284 sequence-specific DNA binding site [nucleotide binding]; other site 521045005285 enolase; Provisional; Region: eno; PRK00077 521045005286 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 521045005287 dimer interface [polypeptide binding]; other site 521045005288 metal binding site [ion binding]; metal-binding site 521045005289 substrate binding pocket [chemical binding]; other site 521045005290 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 521045005291 putative nucleotide binding site [chemical binding]; other site 521045005292 uridine monophosphate binding site [chemical binding]; other site 521045005293 homohexameric interface [polypeptide binding]; other site 521045005294 elongation factor Ts; Reviewed; Region: tsf; PRK12332 521045005295 UBA/TS-N domain; Region: UBA; pfam00627 521045005296 Elongation factor TS; Region: EF_TS; pfam00889 521045005297 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 521045005298 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 521045005299 active site 521045005300 (T/H)XGH motif; other site 521045005301 Transcriptional regulator; Region: Rrf2; pfam02082 521045005302 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 521045005303 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 521045005304 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 521045005305 P loop; other site 521045005306 GTP binding site [chemical binding]; other site 521045005307 prolyl-tRNA synthetase; Provisional; Region: PRK09194 521045005308 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 521045005309 dimer interface [polypeptide binding]; other site 521045005310 motif 1; other site 521045005311 active site 521045005312 motif 2; other site 521045005313 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 521045005314 putative deacylase active site [active] 521045005315 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 521045005316 active site 521045005317 motif 3; other site 521045005318 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 521045005319 anticodon binding site; other site 521045005320 purine nucleoside phosphorylase; Provisional; Region: PRK08202 521045005321 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 521045005322 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 521045005323 active site 521045005324 HIGH motif; other site 521045005325 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 521045005326 KMSKS motif; other site 521045005327 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 521045005328 tRNA binding surface [nucleotide binding]; other site 521045005329 anticodon binding site; other site 521045005330 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 521045005331 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 521045005332 active site 521045005333 HIGH motif; other site 521045005334 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 521045005335 active site 521045005336 KMSKS motif; other site 521045005337 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; pfam05405 521045005338 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 521045005339 dimer interface [polypeptide binding]; other site 521045005340 ADP-ribose binding site [chemical binding]; other site 521045005341 active site 521045005342 nudix motif; other site 521045005343 metal binding site [ion binding]; metal-binding site 521045005344 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 521045005345 active site 521045005346 catalytic motif [active] 521045005347 Zn binding site [ion binding]; other site 521045005348 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 521045005349 Domain of unknown function DUF21; Region: DUF21; pfam01595 521045005350 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 521045005351 Transporter associated domain; Region: CorC_HlyC; smart01091 521045005352 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 521045005353 imidazolonepropionase; Validated; Region: PRK09356 521045005354 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 521045005355 active site 521045005356 glutamate formiminotransferase; Region: FtcD; TIGR02024 521045005357 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 521045005358 Formiminotransferase domain; Region: FTCD; pfam02971 521045005359 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 521045005360 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 521045005361 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 521045005362 Ligand Binding Site [chemical binding]; other site 521045005363 TIGR00269 family protein; Region: TIGR00269 521045005364 Uncharacterized conserved protein [Function unknown]; Region: COG5495 521045005365 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 521045005366 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 521045005367 oligomerization interface [polypeptide binding]; other site 521045005368 active site 521045005369 metal binding site [ion binding]; metal-binding site 521045005370 Mechanosensitive ion channel; Region: MS_channel; pfam00924 521045005371 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 521045005372 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 521045005373 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]; Region: COG1188 521045005374 RNA binding surface [nucleotide binding]; other site 521045005375 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 521045005376 SmpB-tmRNA interface; other site 521045005377 excinuclease ABC subunit B; Provisional; Region: PRK05298 521045005378 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 521045005379 ATP binding site [chemical binding]; other site 521045005380 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 521045005381 nucleotide binding region [chemical binding]; other site 521045005382 ATP-binding site [chemical binding]; other site 521045005383 Ultra-violet resistance protein B; Region: UvrB; pfam12344 521045005384 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 521045005385 putative active site [active] 521045005386 catalytic residue [active] 521045005387 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 521045005388 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 521045005389 5S rRNA interface [nucleotide binding]; other site 521045005390 CTC domain interface [polypeptide binding]; other site 521045005391 L16 interface [polypeptide binding]; other site 521045005392 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 521045005393 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 521045005394 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 521045005395 active site 521045005396 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 521045005397 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 521045005398 Substrate binding site; other site 521045005399 Mg++ binding site; other site 521045005400 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 521045005401 active site 521045005402 substrate binding site [chemical binding]; other site 521045005403 CoA binding site [chemical binding]; other site 521045005404 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 521045005405 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 521045005406 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 521045005407 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 521045005408 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 521045005409 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 521045005410 HIGH motif; other site 521045005411 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 521045005412 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 521045005413 active site 521045005414 KMSKS motif; other site 521045005415 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 521045005416 tRNA binding surface [nucleotide binding]; other site 521045005417 anticodon binding site; other site 521045005418 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 521045005419 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 521045005420 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 521045005421 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 521045005422 dimer interface [polypeptide binding]; other site 521045005423 PYR/PP interface [polypeptide binding]; other site 521045005424 TPP binding site [chemical binding]; other site 521045005425 substrate binding site [chemical binding]; other site 521045005426 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 521045005427 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 521045005428 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 521045005429 pyruvate phosphate dikinase; Provisional; Region: PRK09279 521045005430 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 521045005431 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 521045005432 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 521045005433 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 521045005434 glutamine synthetase, type I; Region: GlnA; TIGR00653 521045005435 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 521045005436 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 521045005437 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 521045005438 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 521045005439 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 521045005440 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 521045005441 active site 521045005442 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 521045005443 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 521045005444 pantothenate kinase; Reviewed; Region: PRK13318 521045005445 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 521045005446 B12 binding site [chemical binding]; other site 521045005447 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 521045005448 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 521045005449 FeS/SAM binding site; other site 521045005450 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 521045005451 catalytic center binding site [active] 521045005452 ATP binding site [chemical binding]; other site 521045005453 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 521045005454 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 521045005455 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 521045005456 OsmC-like protein; Region: OsmC; pfam02566 521045005457 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 521045005458 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 521045005459 active site 521045005460 catalytic tetrad [active] 521045005461 Double zinc ribbon; Region: DZR; pfam12773 521045005462 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 521045005463 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 521045005464 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 521045005465 NAD(P) binding site [chemical binding]; other site 521045005466 homodimer interface [polypeptide binding]; other site 521045005467 substrate binding site [chemical binding]; other site 521045005468 active site 521045005469 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 521045005470 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 521045005471 inhibitor-cofactor binding pocket; inhibition site 521045005472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045005473 catalytic residue [active] 521045005474 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 521045005475 Mg++ binding site [ion binding]; other site 521045005476 putative catalytic motif [active] 521045005477 substrate binding site [chemical binding]; other site 521045005478 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 521045005479 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 521045005480 Cl binding site [ion binding]; other site 521045005481 oligomer interface [polypeptide binding]; other site 521045005482 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 521045005483 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 521045005484 motif II; other site 521045005485 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 521045005486 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 521045005487 Predicted transcriptional regulator [Transcription]; Region: COG2378 521045005488 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 521045005489 RNA/DNA hybrid binding site [nucleotide binding]; other site 521045005490 active site 521045005491 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 521045005492 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 521045005493 MOFRL family; Region: MOFRL; pfam05161 521045005494 GntP family permease; Region: GntP_permease; pfam02447 521045005495 fructuronate transporter; Provisional; Region: PRK10034; cl15264 521045005496 competence damage-inducible protein A; Provisional; Region: PRK00549 521045005497 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 521045005498 putative MPT binding site; other site 521045005499 Competence-damaged protein; Region: CinA; pfam02464 521045005500 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 521045005501 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 521045005502 hinge; other site 521045005503 active site 521045005504 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 521045005505 FeS/SAM binding site; other site 521045005506 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 521045005507 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 521045005508 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12579 521045005509 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 521045005510 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 521045005511 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 521045005512 EDD domain protein, DegV family; Region: DegV; TIGR00762 521045005513 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 521045005514 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 521045005515 PhoH-like protein; Region: PhoH; pfam02562 521045005516 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 521045005517 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045005518 Zn2+ binding site [ion binding]; other site 521045005519 Mg2+ binding site [ion binding]; other site 521045005520 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 521045005521 Uncharacterized conserved protein [Function unknown]; Region: COG4198 521045005522 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 521045005523 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 521045005524 substrate binding site; other site 521045005525 dimer interface; other site 521045005526 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 521045005527 Transposase; Region: HTH_Tnp_1; pfam01527 521045005528 Integrase core domain; Region: rve; pfam00665 521045005529 Integrase core domain; Region: rve_3; pfam13683 521045005530 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 521045005531 active site 521045005532 NTP binding site [chemical binding]; other site 521045005533 metal binding triad [ion binding]; metal-binding site 521045005534 antibiotic binding site [chemical binding]; other site 521045005535 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 521045005536 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 521045005537 dimer interface [polypeptide binding]; other site 521045005538 [2Fe-2S] cluster binding site [ion binding]; other site 521045005539 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 521045005540 PAS domain; Region: PAS_9; pfam13426 521045005541 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 521045005542 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 521045005543 putative dimer interface [polypeptide binding]; other site 521045005544 [2Fe-2S] cluster binding site [ion binding]; other site 521045005545 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 521045005546 4Fe-4S binding domain; Region: Fer4; pfam00037 521045005547 4Fe-4S binding domain; Region: Fer4; pfam00037 521045005548 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 521045005549 transposase/IS protein; Provisional; Region: PRK09183 521045005550 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 521045005551 Walker A motif; other site 521045005552 ATP binding site [chemical binding]; other site 521045005553 Walker B motif; other site 521045005554 arginine finger; other site 521045005555 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 521045005556 Integrase core domain; Region: rve; pfam00665 521045005557 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 521045005558 Transposase; Region: DDE_Tnp_ISL3; pfam01610 521045005559 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 521045005560 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 521045005561 Transposase; Region: DDE_Tnp_ISL3; pfam01610 521045005562 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 521045005563 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045005564 Zn2+ binding site [ion binding]; other site 521045005565 Mg2+ binding site [ion binding]; other site 521045005566 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 521045005567 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 521045005568 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 521045005569 nudix motif; other site 521045005570 nudix motif; other site 521045005571 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 521045005572 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 521045005573 CAAX protease self-immunity; Region: Abi; pfam02517 521045005574 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 521045005575 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 521045005576 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045005577 Coenzyme A binding pocket [chemical binding]; other site 521045005578 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 521045005579 S-adenosylmethionine binding site [chemical binding]; other site 521045005580 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 521045005581 classical (c) SDRs; Region: SDR_c; cd05233 521045005582 NAD(P) binding site [chemical binding]; other site 521045005583 active site 521045005584 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045005585 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 521045005586 Coenzyme A binding pocket [chemical binding]; other site 521045005587 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 521045005588 putative amphipathic alpha helix; other site 521045005589 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 521045005590 Zn binding site [ion binding]; other site 521045005591 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 521045005592 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 521045005593 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 521045005594 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 521045005595 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 521045005596 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 521045005597 Walker A motif; other site 521045005598 ATP binding site [chemical binding]; other site 521045005599 Walker B motif; other site 521045005600 arginine finger; other site 521045005601 Integrase core domain; Region: rve; pfam00665 521045005602 Integrase core domain; Region: rve; pfam00665 521045005603 asparagine synthetase A; Reviewed; Region: PRK06462 521045005604 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 521045005605 motif 1; other site 521045005606 dimer interface [polypeptide binding]; other site 521045005607 active site 521045005608 motif 2; other site 521045005609 motif 3; other site 521045005610 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 521045005611 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 521045005612 FAD binding pocket [chemical binding]; other site 521045005613 FAD binding motif [chemical binding]; other site 521045005614 phosphate binding motif [ion binding]; other site 521045005615 beta-alpha-beta structure motif; other site 521045005616 NAD binding pocket [chemical binding]; other site 521045005617 Iron coordination center [ion binding]; other site 521045005618 putative oxidoreductase; Provisional; Region: PRK12831 521045005619 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 521045005620 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 521045005621 Transposase; Region: DEDD_Tnp_IS110; pfam01548 521045005622 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 521045005623 EDD domain protein, DegV family; Region: DegV; TIGR00762 521045005624 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 521045005625 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 521045005626 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 521045005627 active site 521045005628 Zn binding site [ion binding]; other site 521045005629 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045005630 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 521045005631 TM-ABC transporter signature motif; other site 521045005632 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 521045005633 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 521045005634 TM-ABC transporter signature motif; other site 521045005635 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 521045005636 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 521045005637 Walker A/P-loop; other site 521045005638 ATP binding site [chemical binding]; other site 521045005639 Q-loop/lid; other site 521045005640 ABC transporter signature motif; other site 521045005641 Walker B; other site 521045005642 D-loop; other site 521045005643 H-loop/switch region; other site 521045005644 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 521045005645 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 521045005646 Peptidase family M23; Region: Peptidase_M23; pfam01551 521045005647 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 521045005648 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 521045005649 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 521045005650 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 521045005651 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 521045005652 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 521045005653 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 521045005654 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 521045005655 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 521045005656 DNA binding site [nucleotide binding] 521045005657 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 521045005658 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 521045005659 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 521045005660 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 521045005661 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 521045005662 RPB12 interaction site [polypeptide binding]; other site 521045005663 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 521045005664 RPB10 interaction site [polypeptide binding]; other site 521045005665 RPB1 interaction site [polypeptide binding]; other site 521045005666 RPB11 interaction site [polypeptide binding]; other site 521045005667 RPB3 interaction site [polypeptide binding]; other site 521045005668 RPB12 interaction site [polypeptide binding]; other site 521045005669 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 521045005670 core dimer interface [polypeptide binding]; other site 521045005671 peripheral dimer interface [polypeptide binding]; other site 521045005672 L10 interface [polypeptide binding]; other site 521045005673 L11 interface [polypeptide binding]; other site 521045005674 putative EF-Tu interaction site [polypeptide binding]; other site 521045005675 putative EF-G interaction site [polypeptide binding]; other site 521045005676 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 521045005677 23S rRNA interface [nucleotide binding]; other site 521045005678 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 521045005679 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 521045005680 mRNA/rRNA interface [nucleotide binding]; other site 521045005681 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 521045005682 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 521045005683 putative thiostrepton binding site; other site 521045005684 23S rRNA interface [nucleotide binding]; other site 521045005685 L7/L12 interface [polypeptide binding]; other site 521045005686 L25 interface [polypeptide binding]; other site 521045005687 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 521045005688 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 521045005689 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 521045005690 putative homodimer interface [polypeptide binding]; other site 521045005691 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 521045005692 heterodimer interface [polypeptide binding]; other site 521045005693 homodimer interface [polypeptide binding]; other site 521045005694 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 521045005695 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 521045005696 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 521045005697 Flavoprotein; Region: Flavoprotein; pfam02441 521045005698 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 521045005699 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 521045005700 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 521045005701 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 521045005702 catalytic site [active] 521045005703 G-X2-G-X-G-K; other site 521045005704 hypothetical protein; Provisional; Region: PRK04323 521045005705 hypothetical protein; Provisional; Region: PRK11820 521045005706 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 521045005707 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 521045005708 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 521045005709 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 521045005710 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 521045005711 catalytic residue [active] 521045005712 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 521045005713 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 521045005714 nucleotide binding pocket [chemical binding]; other site 521045005715 K-X-D-G motif; other site 521045005716 catalytic site [active] 521045005717 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 521045005718 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 521045005719 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 521045005720 helix-hairpin-helix signature motif; other site 521045005721 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 521045005722 Dimer interface [polypeptide binding]; other site 521045005723 BRCT sequence motif; other site 521045005724 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 521045005725 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 521045005726 MutS domain III; Region: MutS_III; pfam05192 521045005727 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 521045005728 Walker A/P-loop; other site 521045005729 ATP binding site [chemical binding]; other site 521045005730 Q-loop/lid; other site 521045005731 ABC transporter signature motif; other site 521045005732 Walker B; other site 521045005733 D-loop; other site 521045005734 H-loop/switch region; other site 521045005735 Smr domain; Region: Smr; pfam01713 521045005736 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 521045005737 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 521045005738 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 521045005739 active site 521045005740 phosphorylation site [posttranslational modification] 521045005741 intermolecular recognition site; other site 521045005742 dimerization interface [polypeptide binding]; other site 521045005743 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 521045005744 DNA binding site [nucleotide binding] 521045005745 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 521045005746 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 521045005747 dimer interface [polypeptide binding]; other site 521045005748 phosphorylation site [posttranslational modification] 521045005749 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 521045005750 ATP binding site [chemical binding]; other site 521045005751 Mg2+ binding site [ion binding]; other site 521045005752 G-X-G motif; other site 521045005753 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 521045005754 putative ligand binding pocket/active site [active] 521045005755 putative metal binding site [ion binding]; other site 521045005756 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 521045005757 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 521045005758 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 521045005759 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 521045005760 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 521045005761 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 521045005762 homotrimer interaction site [polypeptide binding]; other site 521045005763 zinc binding site [ion binding]; other site 521045005764 CDP-binding sites; other site 521045005765 DNA polymerase III subunit beta; Validated; Region: PRK05643 521045005766 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 521045005767 putative DNA binding surface [nucleotide binding]; other site 521045005768 dimer interface [polypeptide binding]; other site 521045005769 beta-clamp/clamp loader binding surface; other site 521045005770 beta-clamp/translesion DNA polymerase binding surface; other site 521045005771 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 521045005772 Active_site [active] 521045005773 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 521045005774 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 521045005775 nucleotide binding site [chemical binding]; other site 521045005776 transcription termination factor Rho; Provisional; Region: rho; PRK09376 521045005777 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 521045005778 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 521045005779 RNA binding site [nucleotide binding]; other site 521045005780 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 521045005781 multimer interface [polypeptide binding]; other site 521045005782 Walker A motif; other site 521045005783 ATP binding site [chemical binding]; other site 521045005784 Walker B motif; other site 521045005785 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 521045005786 active site 521045005787 intersubunit interactions; other site 521045005788 catalytic residue [active] 521045005789 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 521045005790 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 521045005791 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 521045005792 alphaNTD homodimer interface [polypeptide binding]; other site 521045005793 alphaNTD - beta interaction site [polypeptide binding]; other site 521045005794 alphaNTD - beta' interaction site [polypeptide binding]; other site 521045005795 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 521045005796 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 521045005797 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 521045005798 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 521045005799 RNA binding surface [nucleotide binding]; other site 521045005800 30S ribosomal protein S11; Validated; Region: PRK05309 521045005801 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 521045005802 30S ribosomal protein S13; Region: bact_S13; TIGR03631 521045005803 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 521045005804 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 521045005805 rRNA binding site [nucleotide binding]; other site 521045005806 predicted 30S ribosome binding site; other site 521045005807 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 521045005808 active site 521045005809 adenylate kinase; Reviewed; Region: adk; PRK00279 521045005810 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 521045005811 AMP-binding site [chemical binding]; other site 521045005812 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 521045005813 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 521045005814 SecY translocase; Region: SecY; pfam00344 521045005815 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 521045005816 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 521045005817 23S rRNA binding site [nucleotide binding]; other site 521045005818 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 521045005819 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 521045005820 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 521045005821 23S rRNA interface [nucleotide binding]; other site 521045005822 5S rRNA interface [nucleotide binding]; other site 521045005823 L27 interface [polypeptide binding]; other site 521045005824 L5 interface [polypeptide binding]; other site 521045005825 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 521045005826 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 521045005827 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 521045005828 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 521045005829 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 521045005830 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 521045005831 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 521045005832 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 521045005833 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 521045005834 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 521045005835 RNA binding site [nucleotide binding]; other site 521045005836 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 521045005837 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 521045005838 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 521045005839 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 521045005840 23S rRNA interface [nucleotide binding]; other site 521045005841 putative translocon interaction site; other site 521045005842 signal recognition particle (SRP54) interaction site; other site 521045005843 L23 interface [polypeptide binding]; other site 521045005844 trigger factor interaction site; other site 521045005845 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 521045005846 23S rRNA interface [nucleotide binding]; other site 521045005847 5S rRNA interface [nucleotide binding]; other site 521045005848 putative antibiotic binding site [chemical binding]; other site 521045005849 L25 interface [polypeptide binding]; other site 521045005850 L27 interface [polypeptide binding]; other site 521045005851 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 521045005852 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 521045005853 G-X-X-G motif; other site 521045005854 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 521045005855 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 521045005856 putative translocon binding site; other site 521045005857 protein-rRNA interface [nucleotide binding]; other site 521045005858 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 521045005859 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 521045005860 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 521045005861 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 521045005862 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 521045005863 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 521045005864 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 521045005865 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 521045005866 elongation factor Tu; Reviewed; Region: PRK00049 521045005867 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 521045005868 G1 box; other site 521045005869 GEF interaction site [polypeptide binding]; other site 521045005870 GTP/Mg2+ binding site [chemical binding]; other site 521045005871 Switch I region; other site 521045005872 G2 box; other site 521045005873 G3 box; other site 521045005874 Switch II region; other site 521045005875 G4 box; other site 521045005876 G5 box; other site 521045005877 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 521045005878 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 521045005879 Antibiotic Binding Site [chemical binding]; other site 521045005880 elongation factor G; Reviewed; Region: PRK00007 521045005881 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 521045005882 G1 box; other site 521045005883 putative GEF interaction site [polypeptide binding]; other site 521045005884 GTP/Mg2+ binding site [chemical binding]; other site 521045005885 Switch I region; other site 521045005886 G2 box; other site 521045005887 G3 box; other site 521045005888 Switch II region; other site 521045005889 G4 box; other site 521045005890 G5 box; other site 521045005891 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 521045005892 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 521045005893 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 521045005894 30S ribosomal protein S7; Validated; Region: PRK05302 521045005895 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 521045005896 S17 interaction site [polypeptide binding]; other site 521045005897 S8 interaction site; other site 521045005898 16S rRNA interaction site [nucleotide binding]; other site 521045005899 streptomycin interaction site [chemical binding]; other site 521045005900 23S rRNA interaction site [nucleotide binding]; other site 521045005901 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 521045005902 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 521045005903 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 521045005904 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 521045005905 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 521045005906 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 521045005907 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 521045005908 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 521045005909 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 521045005910 S-adenosylmethionine binding site [chemical binding]; other site 521045005911 peptide chain release factor 2; Validated; Region: prfB; PRK00578 521045005912 This domain is found in peptide chain release factors; Region: PCRF; smart00937 521045005913 RF-1 domain; Region: RF-1; pfam00472 521045005914 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 521045005915 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 521045005916 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 521045005917 nucleotide binding region [chemical binding]; other site 521045005918 ATP-binding site [chemical binding]; other site 521045005919 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 521045005920 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 521045005921 S-adenosylmethionine binding site [chemical binding]; other site 521045005922 tRNA pseudouridine synthase ACD; Provisional; Region: PRK14586 521045005923 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 521045005924 active site 521045005925 dimerization interface 3.5A [polypeptide binding]; other site 521045005926 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 521045005927 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 521045005928 active site 521045005929 substrate binding site [chemical binding]; other site 521045005930 metal binding site [ion binding]; metal-binding site 521045005931 hypothetical protein; Reviewed; Region: PRK12497 521045005932 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 521045005933 ADP-glucose phosphorylase; Region: PLN02643 521045005934 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 521045005935 dimer interface [polypeptide binding]; other site 521045005936 active site 521045005937 glycogen synthase; Provisional; Region: glgA; PRK00654 521045005938 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 521045005939 ADP-binding pocket [chemical binding]; other site 521045005940 homodimer interface [polypeptide binding]; other site 521045005941 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 521045005942 Bacitracin resistance protein BacA; Region: BacA; pfam02673 521045005943 FOG: CBS domain [General function prediction only]; Region: COG0517 521045005944 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 521045005945 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 521045005946 HD domain; Region: HD_3; cl17350 521045005947 HD domain; Region: HD_3; cl17350 521045005948 aspartate aminotransferase; Provisional; Region: PRK05764 521045005949 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 521045005950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045005951 homodimer interface [polypeptide binding]; other site 521045005952 catalytic residue [active] 521045005953 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 521045005954 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 521045005955 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 521045005956 catalytic core [active] 521045005957 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 521045005958 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 521045005959 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 521045005960 RNA binding surface [nucleotide binding]; other site 521045005961 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 521045005962 active site 521045005963 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 521045005964 lipoprotein signal peptidase; Provisional; Region: PRK14787 521045005965 hypothetical protein; Validated; Region: PRK00110 521045005966 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 521045005967 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 521045005968 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 521045005969 active site 521045005970 metal binding site [ion binding]; metal-binding site 521045005971 homotetramer interface [polypeptide binding]; other site 521045005972 trigger factor; Region: tig; TIGR00115 521045005973 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 521045005974 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 521045005975 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 521045005976 active site 521045005977 dimerization interface [polypeptide binding]; other site 521045005978 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 521045005979 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 521045005980 substrate binding site [chemical binding]; other site 521045005981 hexamer interface [polypeptide binding]; other site 521045005982 metal binding site [ion binding]; metal-binding site 521045005983 GTPase RsgA; Reviewed; Region: PRK00098 521045005984 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 521045005985 RNA binding site [nucleotide binding]; other site 521045005986 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 521045005987 GTPase/Zn-binding domain interface [polypeptide binding]; other site 521045005988 GTP/Mg2+ binding site [chemical binding]; other site 521045005989 G4 box; other site 521045005990 G5 box; other site 521045005991 G1 box; other site 521045005992 Switch I region; other site 521045005993 G2 box; other site 521045005994 G3 box; other site 521045005995 Switch II region; other site 521045005996 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14469 521045005997 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 521045005998 FeS/SAM binding site; other site 521045005999 NusB family; Region: NusB; pfam01029 521045006000 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 521045006001 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 521045006002 active site 521045006003 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 521045006004 HEAT repeats; Region: HEAT_2; pfam13646 521045006005 HEAT repeats; Region: HEAT_2; pfam13646 521045006006 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 521045006007 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 521045006008 active site 521045006009 HIGH motif; other site 521045006010 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 521045006011 active site 521045006012 KMSKS motif; other site 521045006013 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 521045006014 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 521045006015 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 521045006016 Walker A/P-loop; other site 521045006017 ATP binding site [chemical binding]; other site 521045006018 Q-loop/lid; other site 521045006019 ABC transporter signature motif; other site 521045006020 Walker B; other site 521045006021 D-loop; other site 521045006022 H-loop/switch region; other site 521045006023 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 521045006024 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 521045006025 putative active site [active] 521045006026 dimerization interface [polypeptide binding]; other site 521045006027 putative tRNAtyr binding site [nucleotide binding]; other site 521045006028 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 521045006029 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 521045006030 Zn2+ binding site [ion binding]; other site 521045006031 Mg2+ binding site [ion binding]; other site 521045006032 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 521045006033 synthetase active site [active] 521045006034 NTP binding site [chemical binding]; other site 521045006035 metal binding site [ion binding]; metal-binding site 521045006036 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 521045006037 ACT domain; Region: ACT_4; pfam13291 521045006038 hypothetical protein; Provisional; Region: PRK10621 521045006039 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 521045006040 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 521045006041 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 521045006042 active site 521045006043 DNA binding site [nucleotide binding] 521045006044 Int/Topo IB signature motif; other site 521045006045 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 521045006046 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 521045006047 active site 521045006048 nucleophile elbow; other site 521045006049 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 521045006050 salt bridge; other site 521045006051 non-specific DNA binding site [nucleotide binding]; other site 521045006052 sequence-specific DNA binding site [nucleotide binding]; other site 521045006053 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 521045006054 alanyl-tRNA synthetase; Region: A-tRNA_syn_arch; TIGR03683 521045006055 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 521045006056 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 521045006057 PLD-like domain; Region: PLDc_2; pfam13091 521045006058 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 521045006059 putative homodimer interface [polypeptide binding]; other site 521045006060 putative active site [active] 521045006061 catalytic site [active] 521045006062 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 521045006063 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 521045006064 ATP binding site [chemical binding]; other site 521045006065 putative Mg++ binding site [ion binding]; other site 521045006066 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 521045006067 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 521045006068 nucleotide binding region [chemical binding]; other site 521045006069 ATP-binding site [chemical binding]; other site 521045006070 Transcriptional regulators [Transcription]; Region: MarR; COG1846 521045006071 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 521045006072 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 521045006073 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 521045006074 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 521045006075 dimer interface [polypeptide binding]; other site 521045006076 conserved gate region; other site 521045006077 putative PBP binding loops; other site 521045006078 ABC-ATPase subunit interface; other site 521045006079 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045006080 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 521045006081 dimer interface [polypeptide binding]; other site 521045006082 conserved gate region; other site 521045006083 putative PBP binding loops; other site 521045006084 ABC-ATPase subunit interface; other site 521045006085 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045006086 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045006087 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 521045006088 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 521045006089 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 521045006090 active site 521045006091 catalytic site [active] 521045006092 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 521045006093 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 521045006094 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 521045006095 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045006096 Walker A/P-loop; other site 521045006097 ATP binding site [chemical binding]; other site 521045006098 Q-loop/lid; other site 521045006099 ABC transporter signature motif; other site 521045006100 Walker B; other site 521045006101 D-loop; other site 521045006102 H-loop/switch region; other site 521045006103 TOBE domain; Region: TOBE_2; pfam08402 521045006104 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 521045006105 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 521045006106 dimer interface [polypeptide binding]; other site 521045006107 conserved gate region; other site 521045006108 putative PBP binding loops; other site 521045006109 ABC-ATPase subunit interface; other site 521045006110 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 521045006111 dimer interface [polypeptide binding]; other site 521045006112 conserved gate region; other site 521045006113 putative PBP binding loops; other site 521045006114 ABC-ATPase subunit interface; other site 521045006115 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 521045006116 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 521045006117 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 521045006118 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 521045006119 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 521045006120 DNA-binding site [nucleotide binding]; DNA binding site 521045006121 UTRA domain; Region: UTRA; pfam07702 521045006122 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 521045006123 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 521045006124 putative active site [active] 521045006125 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 521045006126 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 521045006127 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 521045006128 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 521045006129 NlpC/P60 family; Region: NLPC_P60; cl17555 521045006130 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045006131 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045006132 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 521045006133 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 521045006134 dimer interface [polypeptide binding]; other site 521045006135 putative PBP binding loops; other site 521045006136 ABC-ATPase subunit interface; other site 521045006137 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045006138 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 521045006139 dimer interface [polypeptide binding]; other site 521045006140 conserved gate region; other site 521045006141 putative PBP binding loops; other site 521045006142 ABC-ATPase subunit interface; other site 521045006143 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 521045006144 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 521045006145 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 521045006146 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 521045006147 active site 521045006148 metal binding site [ion binding]; metal-binding site 521045006149 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 521045006150 Ligand binding site [chemical binding]; other site 521045006151 Electron transfer flavoprotein domain; Region: ETF; pfam01012 521045006152 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 521045006153 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 521045006154 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 521045006155 FAD binding domain; Region: FAD_binding_4; pfam01565 521045006156 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 521045006157 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045006158 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 521045006159 dimer interface [polypeptide binding]; other site 521045006160 conserved gate region; other site 521045006161 putative PBP binding loops; other site 521045006162 ABC-ATPase subunit interface; other site 521045006163 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 521045006164 dimer interface [polypeptide binding]; other site 521045006165 conserved gate region; other site 521045006166 putative PBP binding loops; other site 521045006167 ABC-ATPase subunit interface; other site 521045006168 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045006169 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045006170 Transcriptional regulators [Transcription]; Region: MarR; COG1846 521045006171 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 521045006172 putative DNA binding site [nucleotide binding]; other site 521045006173 putative Zn2+ binding site [ion binding]; other site 521045006174 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 521045006175 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 521045006176 nucleotide binding site [chemical binding]; other site 521045006177 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 521045006178 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 521045006179 Active site serine [active] 521045006180 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 521045006181 AAA domain; Region: AAA_14; pfam13173 521045006182 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 521045006183 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 521045006184 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 521045006185 active site 521045006186 homodimer interface [polypeptide binding]; other site 521045006187 catalytic site [active] 521045006188 Archaeal ATPase; Region: Arch_ATPase; pfam01637 521045006189 AAA domain; Region: AAA_14; pfam13173 521045006190 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; cl17220 521045006191 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 521045006192 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 521045006193 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 521045006194 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 521045006195 trimer interface [polypeptide binding]; other site 521045006196 putative Zn binding site [ion binding]; other site 521045006197 putative transporter; Provisional; Region: PRK03699 521045006198 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 521045006199 putative substrate translocation pore; other site 521045006200 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 521045006201 S-adenosylmethionine binding site [chemical binding]; other site 521045006202 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 521045006203 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 521045006204 metal binding site [ion binding]; metal-binding site 521045006205 active site 521045006206 I-site; other site 521045006207 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 521045006208 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 521045006209 active site 521045006210 Zn binding site [ion binding]; other site 521045006211 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 521045006212 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 521045006213 Walker A motif; other site 521045006214 ATP binding site [chemical binding]; other site 521045006215 Walker B motif; other site 521045006216 arginine finger; other site 521045006217 hypothetical protein; Provisional; Region: PRK14628 521045006218 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 521045006219 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 521045006220 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 521045006221 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 521045006222 Phosphoglycerate kinase; Region: PGK; pfam00162 521045006223 substrate binding site [chemical binding]; other site 521045006224 hinge regions; other site 521045006225 ADP binding site [chemical binding]; other site 521045006226 catalytic site [active] 521045006227 triosephosphate isomerase; Provisional; Region: PRK14567 521045006228 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 521045006229 substrate binding site [chemical binding]; other site 521045006230 dimer interface [polypeptide binding]; other site 521045006231 catalytic triad [active] 521045006232 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 521045006233 hypothetical protein; Provisional; Region: PRK01184 521045006234 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 521045006235 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 521045006236 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 521045006237 putative substrate binding pocket [chemical binding]; other site 521045006238 dimer interface [polypeptide binding]; other site 521045006239 phosphate binding site [ion binding]; other site 521045006240 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 521045006241 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 521045006242 ATP cone domain; Region: ATP-cone; pfam03477 521045006243 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 521045006244 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 521045006245 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 521045006246 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 521045006247 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 521045006248 dimer interface [polypeptide binding]; other site 521045006249 putative anticodon binding site; other site 521045006250 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 521045006251 motif 1; other site 521045006252 active site 521045006253 motif 2; other site 521045006254 motif 3; other site 521045006255 Yqey-like protein; Region: YqeY; pfam09424 521045006256 MutL protein; Region: MutL; pfam13941 521045006257 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 521045006258 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 521045006259 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 521045006260 folate binding site [chemical binding]; other site 521045006261 NADP+ binding site [chemical binding]; other site 521045006262 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 521045006263 S-adenosylmethionine binding site [chemical binding]; other site 521045006264 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 521045006265 thymidylate kinase; Validated; Region: tmk; PRK00698 521045006266 TMP-binding site; other site 521045006267 ATP-binding site [chemical binding]; other site 521045006268 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 521045006269 Clp amino terminal domain; Region: Clp_N; pfam02861 521045006270 Clp amino terminal domain; Region: Clp_N; pfam02861 521045006271 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 521045006272 Walker A motif; other site 521045006273 ATP binding site [chemical binding]; other site 521045006274 Walker B motif; other site 521045006275 arginine finger; other site 521045006276 UvrB/uvrC motif; Region: UVR; pfam02151 521045006277 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 521045006278 Walker A motif; other site 521045006279 ATP binding site [chemical binding]; other site 521045006280 Walker B motif; other site 521045006281 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 521045006282 DNA repair protein RadA; Provisional; Region: PRK11823 521045006283 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 521045006284 Walker A motif; other site 521045006285 ATP binding site [chemical binding]; other site 521045006286 Walker B motif; other site 521045006287 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 521045006288 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 521045006289 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 521045006290 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 521045006291 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 521045006292 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 521045006293 active site 521045006294 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 521045006295 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 521045006296 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_20; cd08519 521045006297 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 521045006298 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 521045006299 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 521045006300 dimer interface [polypeptide binding]; other site 521045006301 conserved gate region; other site 521045006302 putative PBP binding loops; other site 521045006303 ABC-ATPase subunit interface; other site 521045006304 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 521045006305 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 521045006306 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 521045006307 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 521045006308 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 521045006309 Walker A/P-loop; other site 521045006310 ATP binding site [chemical binding]; other site 521045006311 Q-loop/lid; other site 521045006312 ABC transporter signature motif; other site 521045006313 Walker B; other site 521045006314 D-loop; other site 521045006315 H-loop/switch region; other site 521045006316 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 521045006317 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 521045006318 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 521045006319 Walker A/P-loop; other site 521045006320 ATP binding site [chemical binding]; other site 521045006321 Q-loop/lid; other site 521045006322 ABC transporter signature motif; other site 521045006323 Walker B; other site 521045006324 D-loop; other site 521045006325 H-loop/switch region; other site 521045006326 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 521045006327 putative oxidoreductase; Provisional; Region: PRK13984 521045006328 4Fe-4S binding domain; Region: Fer4; pfam00037 521045006329 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 521045006330 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 521045006331 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 521045006332 NADH dehydrogenase subunit D; Validated; Region: PRK06075 521045006333 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 521045006334 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 521045006335 NADH dehydrogenase subunit B; Validated; Region: PRK06411 521045006336 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 521045006337 NADH:ubiquinone oxidoreductase subunit 1 (chain H) [Energy production and conversion]; Region: NuoH; COG1005 521045006338 NADH dehydrogenase subunit M; Validated; Region: PRK08668 521045006339 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 521045006340 NADH dehydrogenase subunit N; Validated; Region: PRK08377 521045006341 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 521045006342 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 521045006343 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12567 521045006344 hypothetical protein; Provisional; Region: PRK08378 521045006345 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 521045006346 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 521045006347 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 521045006348 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 521045006349 DNA-binding site [nucleotide binding]; DNA binding site 521045006350 RNA-binding motif; other site 521045006351 EDD domain protein, DegV family; Region: DegV; TIGR00762 521045006352 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 521045006353 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 521045006354 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 521045006355 active site 521045006356 putative substrate binding pocket [chemical binding]; other site 521045006357 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 521045006358 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 521045006359 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 521045006360 peptidase; Reviewed; Region: PRK13004 521045006361 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 521045006362 putative metal binding site [ion binding]; other site 521045006363 putative dimer interface [polypeptide binding]; other site 521045006364 probable carbamoyltransferase YgeW; Region: ygeW; TIGR03316 521045006365 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 521045006366 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 521045006367 phenylhydantoinase; Validated; Region: PRK08323 521045006368 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 521045006369 active site 521045006370 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 521045006371 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 521045006372 active site 521045006373 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 521045006374 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 521045006375 phosphate binding site [ion binding]; other site 521045006376 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 521045006377 4Fe-4S binding domain; Region: Fer4; pfam00037 521045006378 threonine synthase; Validated; Region: PRK06260 521045006379 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 521045006380 homodimer interface [polypeptide binding]; other site 521045006381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045006382 catalytic residue [active] 521045006383 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 521045006384 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 521045006385 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 521045006386 Ligand binding site; other site 521045006387 metal-binding site 521045006388 XdhC Rossmann domain; Region: XdhC_C; pfam13478 521045006389 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 521045006390 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 521045006391 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 521045006392 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 521045006393 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 521045006394 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 521045006395 catalytic loop [active] 521045006396 iron binding site [ion binding]; other site 521045006397 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 521045006398 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 521045006399 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 521045006400 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 521045006401 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 521045006402 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 521045006403 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 521045006404 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 521045006405 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 521045006406 dimer interface [polypeptide binding]; other site 521045006407 conserved gate region; other site 521045006408 putative PBP binding loops; other site 521045006409 ABC-ATPase subunit interface; other site 521045006410 Uncharacterized conserved protein [Function unknown]; Region: COG2014 521045006411 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 521045006412 Domain of unknown function (DUF364); Region: DUF364; pfam04016 521045006413 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 521045006414 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 521045006415 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 521045006416 catalytic residue [active] 521045006417 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 521045006418 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 521045006419 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 521045006420 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 521045006421 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 521045006422 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 521045006423 active site 521045006424 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 521045006425 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 521045006426 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 521045006427 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 521045006428 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 521045006429 active site 521045006430 dimer interface [polypeptide binding]; other site 521045006431 motif 1; other site 521045006432 motif 2; other site 521045006433 motif 3; other site 521045006434 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 521045006435 anticodon binding site; other site 521045006436 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 521045006437 homotrimer interaction site [polypeptide binding]; other site 521045006438 putative active site [active] 521045006439 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 521045006440 Clostripain family; Region: Peptidase_C11; pfam03415 521045006441 Tartrate dehydratase beta subunit/Fumarate hydratase class I, C-terminal domain [Energy production and conversion]; Region: FumA; COG1838 521045006442 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 521045006443 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 521045006444 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 521045006445 ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_PF0470_like; cd06555 521045006446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 521045006447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 521045006448 Coenzyme A binding pocket [chemical binding]; other site 521045006449 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 521045006450 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 521045006451 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 521045006452 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 521045006453 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 521045006454 active site 521045006455 Riboflavin kinase; Region: Flavokinase; pfam01687 521045006456 tRNA pseudouridine synthase B; Provisional; Region: PRK14124 521045006457 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 521045006458 RNA binding site [nucleotide binding]; other site 521045006459 active site 521045006460 PUA domain; Region: PUA; pfam01472 521045006461 Ribosome-binding factor A; Region: RBFA; pfam02033 521045006462 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 521045006463 active site 521045006464 nucleophile elbow; other site 521045006465 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 521045006466 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 521045006467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 521045006468 Walker A/P-loop; other site 521045006469 ATP binding site [chemical binding]; other site 521045006470 Q-loop/lid; other site 521045006471 ABC transporter signature motif; other site 521045006472 Walker B; other site 521045006473 D-loop; other site 521045006474 H-loop/switch region; other site 521045006475 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 521045006476 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 521045006477 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 521045006478 Walker A/P-loop; other site 521045006479 ATP binding site [chemical binding]; other site 521045006480 Q-loop/lid; other site 521045006481 ABC transporter signature motif; other site 521045006482 Walker B; other site 521045006483 D-loop; other site 521045006484 H-loop/switch region; other site 521045006485 GTPase Era; Reviewed; Region: era; PRK00089 521045006486 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 521045006487 G1 box; other site 521045006488 GTP/Mg2+ binding site [chemical binding]; other site 521045006489 Switch I region; other site 521045006490 G2 box; other site 521045006491 Switch II region; other site 521045006492 G3 box; other site 521045006493 G4 box; other site 521045006494 G5 box; other site 521045006495 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 521045006496 DALR anticodon binding domain; Region: DALR_1; pfam05746 521045006497 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 521045006498 dimer interface [polypeptide binding]; other site 521045006499 motif 1; other site 521045006500 active site 521045006501 motif 2; other site 521045006502 motif 3; other site 521045006503 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 521045006504 DAK2 domain; Region: Dak2; pfam02734 521045006505 Asp23 family; Region: Asp23; pfam03780 521045006506 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 521045006507 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 521045006508 TPP-binding site; other site 521045006509 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 521045006510 PYR/PP interface [polypeptide binding]; other site 521045006511 dimer interface [polypeptide binding]; other site 521045006512 TPP binding site [chemical binding]; other site 521045006513 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 521045006514 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 521045006515 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 521045006516 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 521045006517 homodimer interface [polypeptide binding]; other site 521045006518 NADP binding site [chemical binding]; other site 521045006519 substrate binding site [chemical binding]; other site 521045006520 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 521045006521 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 521045006522 Potassium binding sites [ion binding]; other site 521045006523 Cesium cation binding sites [ion binding]; other site 521045006524 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 521045006525 putative RNA binding site [nucleotide binding]; other site 521045006526 Asp23 family; Region: Asp23; cl00574 521045006527 elongation factor P; Validated; Region: PRK00529 521045006528 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 521045006529 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 521045006530 RNA binding site [nucleotide binding]; other site 521045006531 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 521045006532 RNA binding site [nucleotide binding]; other site 521045006533 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 521045006534 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 521045006535 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 521045006536 active site 521045006537 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 521045006538 MutS domain I; Region: MutS_I; pfam01624 521045006539 MutS domain II; Region: MutS_II; pfam05188 521045006540 MutS domain III; Region: MutS_III; pfam05192 521045006541 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 521045006542 Walker A/P-loop; other site 521045006543 ATP binding site [chemical binding]; other site 521045006544 Q-loop/lid; other site 521045006545 ABC transporter signature motif; other site 521045006546 Walker B; other site 521045006547 D-loop; other site 521045006548 H-loop/switch region; other site 521045006549 Clp protease; Region: CLP_protease; pfam00574 521045006550 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 521045006551 oligomer interface [polypeptide binding]; other site 521045006552 active site residues [active] 521045006553 Domain of unknown function (DUF370); Region: DUF370; cl00898 521045006554 GTPase CgtA; Reviewed; Region: obgE; PRK12297 521045006555 GTP1/OBG; Region: GTP1_OBG; pfam01018 521045006556 Obg GTPase; Region: Obg; cd01898 521045006557 G1 box; other site 521045006558 GTP/Mg2+ binding site [chemical binding]; other site 521045006559 Switch I region; other site 521045006560 G2 box; other site 521045006561 G3 box; other site 521045006562 Switch II region; other site 521045006563 G4 box; other site 521045006564 G5 box; other site 521045006565 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 521045006566 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 521045006567 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 521045006568 active site 521045006569 (T/H)XGH motif; other site 521045006570 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 521045006571 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 521045006572 FMN binding site [chemical binding]; other site 521045006573 active site 521045006574 catalytic residues [active] 521045006575 substrate binding site [chemical binding]; other site 521045006576 Threonine dehydrogenase; Region: TDH; cd05281 521045006577 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 521045006578 structural Zn binding site [ion binding]; other site 521045006579 catalytic Zn binding site [ion binding]; other site 521045006580 tetramer interface [polypeptide binding]; other site 521045006581 NADP binding site [chemical binding]; other site 521045006582 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 521045006583 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 521045006584 substrate-cofactor binding pocket; other site 521045006585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045006586 catalytic residue [active] 521045006587 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 521045006588 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 521045006589 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 521045006590 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 521045006591 diiron binding motif [ion binding]; other site 521045006592 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 521045006593 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 521045006594 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 521045006595 nucleotide binding site/active site [active] 521045006596 HIT family signature motif; other site 521045006597 catalytic residue [active] 521045006598 Methyltransferase domain; Region: Methyltransf_31; pfam13847 521045006599 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 521045006600 S-adenosylmethionine binding site [chemical binding]; other site 521045006601 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 521045006602 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 521045006603 Walker A/P-loop; other site 521045006604 ATP binding site [chemical binding]; other site 521045006605 Q-loop/lid; other site 521045006606 ABC transporter signature motif; other site 521045006607 Walker B; other site 521045006608 D-loop; other site 521045006609 H-loop/switch region; other site 521045006610 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 521045006611 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 521045006612 Walker A/P-loop; other site 521045006613 ATP binding site [chemical binding]; other site 521045006614 Q-loop/lid; other site 521045006615 ABC transporter signature motif; other site 521045006616 Walker B; other site 521045006617 D-loop; other site 521045006618 H-loop/switch region; other site 521045006619 Protein of unknown function (DUF554); Region: DUF554; pfam04474 521045006620 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 521045006621 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 521045006622 TPP-binding site [chemical binding]; other site 521045006623 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 521045006624 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 521045006625 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 521045006626 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 521045006627 dimer interface [polypeptide binding]; other site 521045006628 PYR/PP interface [polypeptide binding]; other site 521045006629 TPP binding site [chemical binding]; other site 521045006630 substrate binding site [chemical binding]; other site 521045006631 Rubredoxin [Energy production and conversion]; Region: COG1773 521045006632 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 521045006633 iron binding site [ion binding]; other site 521045006634 Superoxide reductase-like (SORL) domain, class II; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_classII; cd03172 521045006635 non-heme iron binding site [ion binding]; other site 521045006636 tetramer interface [polypeptide binding]; other site 521045006637 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 521045006638 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 521045006639 active site 521045006640 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 521045006641 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 521045006642 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 521045006643 Ligand Binding Site [chemical binding]; other site 521045006644 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 521045006645 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 521045006646 active site 521045006647 motif I; other site 521045006648 motif II; other site 521045006649 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 521045006650 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 521045006651 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 521045006652 putative active site [active] 521045006653 catalytic triad [active] 521045006654 putative dimer interface [polypeptide binding]; other site 521045006655 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 521045006656 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 521045006657 active site 521045006658 dimerization interface [polypeptide binding]; other site 521045006659 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 521045006660 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 521045006661 putative tRNA-binding site [nucleotide binding]; other site 521045006662 B3/4 domain; Region: B3_4; pfam03483 521045006663 tRNA synthetase B5 domain; Region: B5; smart00874 521045006664 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 521045006665 dimer interface [polypeptide binding]; other site 521045006666 motif 1; other site 521045006667 motif 3; other site 521045006668 motif 2; other site 521045006669 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 521045006670 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 521045006671 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 521045006672 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 521045006673 dimer interface [polypeptide binding]; other site 521045006674 motif 1; other site 521045006675 active site 521045006676 motif 2; other site 521045006677 motif 3; other site 521045006678 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 521045006679 metal binding site 2 [ion binding]; metal-binding site 521045006680 putative DNA binding helix; other site 521045006681 metal binding site 1 [ion binding]; metal-binding site 521045006682 dimer interface [polypeptide binding]; other site 521045006683 structural Zn2+ binding site [ion binding]; other site 521045006684 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 521045006685 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 521045006686 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 521045006687 DNA binding residues [nucleotide binding] 521045006688 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 521045006689 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 521045006690 oligomer interface [polypeptide binding]; other site 521045006691 putative active site [active] 521045006692 metal binding site [ion binding]; metal-binding site 521045006693 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 521045006694 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 521045006695 minor groove reading motif; other site 521045006696 helix-hairpin-helix signature motif; other site 521045006697 substrate binding pocket [chemical binding]; other site 521045006698 active site 521045006699 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 521045006700 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 521045006701 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 521045006702 dimer interface [polypeptide binding]; other site 521045006703 conserved gate region; other site 521045006704 putative PBP binding loops; other site 521045006705 ABC-ATPase subunit interface; other site 521045006706 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 521045006707 putative PBP binding loops; other site 521045006708 ABC-ATPase subunit interface; other site 521045006709 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 521045006710 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 521045006711 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 521045006712 DEAD-like helicases superfamily; Region: DEXDc; smart00487 521045006713 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 521045006714 ATP binding site [chemical binding]; other site 521045006715 putative Mg++ binding site [ion binding]; other site 521045006716 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 521045006717 nucleotide binding region [chemical binding]; other site 521045006718 ATP-binding site [chemical binding]; other site 521045006719 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 521045006720 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 521045006721 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 521045006722 trmE is a tRNA modification GTPase; Region: trmE; cd04164 521045006723 G1 box; other site 521045006724 GTP/Mg2+ binding site [chemical binding]; other site 521045006725 Switch I region; other site 521045006726 G2 box; other site 521045006727 Switch II region; other site 521045006728 G3 box; other site 521045006729 G4 box; other site 521045006730 G5 box; other site 521045006731 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 521045006732 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 521045006733 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 521045006734 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 521045006735 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 521045006736 TPP-binding site [chemical binding]; other site 521045006737 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 521045006738 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 521045006739 dimer interface [polypeptide binding]; other site 521045006740 PYR/PP interface [polypeptide binding]; other site 521045006741 TPP binding site [chemical binding]; other site 521045006742 substrate binding site [chemical binding]; other site 521045006743 Ferredoxin [Energy production and conversion]; Region: COG1146 521045006744 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 521045006745 butyrate kinase; Provisional; Region: PRK03011 521045006746 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 521045006747 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 521045006748 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 521045006749 nucleotide binding site [chemical binding]; other site 521045006750 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 521045006751 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 521045006752 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 521045006753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045006754 homodimer interface [polypeptide binding]; other site 521045006755 catalytic residue [active] 521045006756 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 521045006757 transmembrane helices; other site 521045006758 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 521045006759 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 521045006760 homodimer interface [polypeptide binding]; other site 521045006761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 521045006762 catalytic residue [active] 521045006763 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 521045006764 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 521045006765 putative ligand binding site [chemical binding]; other site 521045006766 NAD binding site [chemical binding]; other site 521045006767 dimerization interface [polypeptide binding]; other site 521045006768 catalytic site [active] 521045006769 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141