-- dump date 20120504_131639 -- class Genbank::misc_feature -- table misc_feature_note -- id note 557600000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 557600000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 557600000003 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 557600000004 Walker A motif; other site 557600000005 ATP binding site [chemical binding]; other site 557600000006 Walker B motif; other site 557600000007 arginine finger; other site 557600000008 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 557600000009 DnaA box-binding interface [nucleotide binding]; other site 557600000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 557600000011 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 557600000012 putative DNA binding surface [nucleotide binding]; other site 557600000013 dimer interface [polypeptide binding]; other site 557600000014 beta-clamp/clamp loader binding surface; other site 557600000015 beta-clamp/translesion DNA polymerase binding surface; other site 557600000016 recombination protein F; Reviewed; Region: recF; PRK00064 557600000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600000018 Walker A/P-loop; other site 557600000019 ATP binding site [chemical binding]; other site 557600000020 Q-loop/lid; other site 557600000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600000022 ABC transporter signature motif; other site 557600000023 Walker B; other site 557600000024 D-loop; other site 557600000025 H-loop/switch region; other site 557600000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 557600000027 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 557600000028 Mg2+ binding site [ion binding]; other site 557600000029 G-X-G motif; other site 557600000030 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 557600000031 anchoring element; other site 557600000032 dimer interface [polypeptide binding]; other site 557600000033 ATP binding site [chemical binding]; other site 557600000034 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 557600000035 active site 557600000036 putative metal-binding site [ion binding]; other site 557600000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557600000038 Cytochrome b562; Region: Cytochrom_B562; cl01546 557600000039 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 557600000040 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 557600000041 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 557600000042 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 557600000043 ABC transporter; Region: ABC_tran_2; pfam12848 557600000044 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 557600000045 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557600000046 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 557600000047 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 557600000048 short chain dehydrogenase; Validated; Region: PRK05855 557600000049 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 557600000050 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 557600000051 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 557600000052 active site 557600000053 HIGH motif; other site 557600000054 dimer interface [polypeptide binding]; other site 557600000055 KMSKS motif; other site 557600000056 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 557600000057 dimer interface [polypeptide binding]; other site 557600000058 N-terminal domain interface [polypeptide binding]; other site 557600000059 substrate binding pocket (H-site) [chemical binding]; other site 557600000060 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 557600000061 16S rRNA methyltransferase B; Provisional; Region: PRK10901 557600000062 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 557600000063 putative RNA binding site [nucleotide binding]; other site 557600000064 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 557600000065 S-adenosylmethionine binding site [chemical binding]; other site 557600000066 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 557600000067 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 557600000068 putative active site [active] 557600000069 substrate binding site [chemical binding]; other site 557600000070 putative cosubstrate binding site; other site 557600000071 catalytic site [active] 557600000072 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 557600000073 substrate binding site [chemical binding]; other site 557600000074 Dehydratase family; Region: ILVD_EDD; cl00340 557600000075 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 557600000076 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557600000077 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600000078 Helix-turn-helix domains; Region: HTH; cl00088 557600000079 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600000080 dimerization interface [polypeptide binding]; other site 557600000081 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 557600000082 uracil-xanthine permease; Region: ncs2; TIGR00801 557600000083 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 557600000084 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 557600000085 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600000086 Helix-turn-helix domains; Region: HTH; cl00088 557600000087 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 557600000088 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557600000089 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 557600000090 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 557600000091 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 557600000092 chaperone protein DnaJ; Provisional; Region: PRK10767 557600000093 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 557600000094 HSP70 interaction site [polypeptide binding]; other site 557600000095 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 557600000096 substrate binding site [polypeptide binding]; other site 557600000097 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 557600000098 Zn binding sites [ion binding]; other site 557600000099 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 557600000100 dimer interface [polypeptide binding]; other site 557600000101 dihydrodipicolinate reductase; Provisional; Region: PRK00048 557600000102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600000103 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 557600000104 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 557600000105 putative lipid binding site [chemical binding]; other site 557600000106 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 557600000107 putative substrate translocation pore; other site 557600000108 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 557600000109 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557600000110 active site 557600000111 catalytic tetrad [active] 557600000112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600000113 Helix-turn-helix domains; Region: HTH; cl00088 557600000114 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 557600000115 putative effector binding pocket; other site 557600000116 dimerization interface [polypeptide binding]; other site 557600000117 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 557600000118 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600000119 DNA-binding site [nucleotide binding]; DNA binding site 557600000120 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 557600000121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600000122 homodimer interface [polypeptide binding]; other site 557600000123 catalytic residue [active] 557600000124 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 557600000125 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 557600000126 putative NAD(P) binding site [chemical binding]; other site 557600000127 putative substrate binding site [chemical binding]; other site 557600000128 catalytic Zn binding site [ion binding]; other site 557600000129 structural Zn binding site [ion binding]; other site 557600000130 dimer interface [polypeptide binding]; other site 557600000131 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 557600000132 Peptidase family M23; Region: Peptidase_M23; pfam01551 557600000133 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 557600000134 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557600000135 minor groove reading motif; other site 557600000136 helix-hairpin-helix signature motif; other site 557600000137 substrate binding pocket [chemical binding]; other site 557600000138 active site 557600000139 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 557600000140 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 557600000141 DNA binding and oxoG recognition site [nucleotide binding] 557600000142 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 557600000143 nucleotide binding site/active site [active] 557600000144 HIT family signature motif; other site 557600000145 catalytic residue [active] 557600000146 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 557600000147 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600000148 hypothetical protein; Provisional; Region: PRK13682 557600000149 Flagellin N-methylase; Region: FliB; cl00497 557600000150 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 557600000151 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 557600000152 recombination factor protein RarA; Reviewed; Region: PRK13342 557600000153 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 557600000154 Walker A motif; other site 557600000155 ATP binding site [chemical binding]; other site 557600000156 Walker B motif; other site 557600000157 arginine finger; other site 557600000158 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 557600000159 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 557600000160 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 557600000161 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 557600000162 ATP binding site [chemical binding]; other site 557600000163 active site 557600000164 substrate binding site [chemical binding]; other site 557600000165 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 557600000166 dihydrodipicolinate synthase; Region: dapA; TIGR00674 557600000167 dimer interface [polypeptide binding]; other site 557600000168 active site 557600000169 catalytic residue [active] 557600000170 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 557600000171 Isochorismatase family; Region: Isochorismatase; pfam00857 557600000172 catalytic triad [active] 557600000173 metal binding site [ion binding]; metal-binding site 557600000174 conserved cis-peptide bond; other site 557600000175 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 557600000176 Membrane transport protein; Region: Mem_trans; cl09117 557600000177 putative efflux protein, MATE family; Region: matE; TIGR00797 557600000178 MatE; Region: MatE; cl10513 557600000179 MatE; Region: MatE; cl10513 557600000180 Protein of unknown function (DUF523); Region: DUF523; cl00733 557600000181 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 557600000182 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 557600000183 dimer interface [polypeptide binding]; other site 557600000184 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 557600000185 active site 557600000186 Fe binding site [ion binding]; other site 557600000187 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557600000188 Helix-turn-helix domains; Region: HTH; cl00088 557600000189 Bacterial transcriptional regulator; Region: IclR; pfam01614 557600000190 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557600000191 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 557600000192 Zn binding site [ion binding]; other site 557600000193 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557600000194 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 557600000195 dimer interface [polypeptide binding]; other site 557600000196 N-terminal domain interface [polypeptide binding]; other site 557600000197 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 557600000198 fumarylacetoacetase; Region: PLN02856 557600000199 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 557600000200 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 557600000201 aromatic amino acid transporter; Provisional; Region: PRK10238 557600000202 Spore germination protein; Region: Spore_permease; cl15802 557600000203 Peptidase M15; Region: Peptidase_M15_3; cl01194 557600000204 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 557600000205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600000206 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 557600000207 Acyltransferase family; Region: Acyl_transf_3; pfam01757 557600000208 OpgC protein; Region: OpgC_C; cl00792 557600000209 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 557600000210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600000211 DNA-binding site [nucleotide binding]; DNA binding site 557600000212 UTRA domain; Region: UTRA; cl01230 557600000213 HutD; Region: HutD; cl01532 557600000214 urocanate hydratase; Provisional; Region: PRK05414 557600000215 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 557600000216 active sites [active] 557600000217 tetramer interface [polypeptide binding]; other site 557600000218 putative proline-specific permease; Provisional; Region: proY; PRK10580 557600000219 imidazolonepropionase; Validated; Region: PRK09356 557600000220 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 557600000221 active site 557600000222 Arginase family; Region: Arginase; cl00306 557600000223 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 557600000224 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 557600000225 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 557600000226 motif II; other site 557600000227 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 557600000228 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 557600000229 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 557600000230 cofactor binding site; other site 557600000231 DNA binding site [nucleotide binding] 557600000232 substrate interaction site [chemical binding]; other site 557600000233 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 557600000234 Mitochondrial inner membrane protein; Region: Mitofilin; pfam09731 557600000235 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557600000236 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 557600000237 ATP binding site [chemical binding]; other site 557600000238 Mg2+ binding site [ion binding]; other site 557600000239 G-X-G motif; other site 557600000240 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 557600000241 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 557600000242 glutaminase active site [active] 557600000243 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 557600000244 dimer interface [polypeptide binding]; other site 557600000245 active site 557600000246 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 557600000247 dimer interface [polypeptide binding]; other site 557600000248 active site 557600000249 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 557600000250 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 557600000251 Substrate binding site; other site 557600000252 Mg++ binding site; other site 557600000253 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 557600000254 active site 557600000255 substrate binding site [chemical binding]; other site 557600000256 CoA binding site [chemical binding]; other site 557600000257 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 557600000258 tetramer interfaces [polypeptide binding]; other site 557600000259 binuclear metal-binding site [ion binding]; other site 557600000260 thiamine monophosphate kinase; Provisional; Region: PRK05731 557600000261 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 557600000262 ATP binding site [chemical binding]; other site 557600000263 dimerization interface [polypeptide binding]; other site 557600000264 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 557600000265 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 557600000266 homopentamer interface [polypeptide binding]; other site 557600000267 active site 557600000268 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 557600000269 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 557600000270 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; cl00522 557600000271 dimerization interface [polypeptide binding]; other site 557600000272 active site 557600000273 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 557600000274 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 557600000275 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 557600000276 phosphoserine phosphatase SerB; Region: serB; TIGR00338 557600000277 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 557600000278 motif II; other site 557600000279 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 557600000280 putative active site [active] 557600000281 dimerization interface [polypeptide binding]; other site 557600000282 putative tRNAtyr binding site [nucleotide binding]; other site 557600000283 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 557600000284 active site 557600000285 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 557600000286 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 557600000287 active site residue [active] 557600000288 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 557600000289 active site residue [active] 557600000290 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 557600000291 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600000292 Secretory lipase; Region: LIP; pfam03583 557600000293 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 557600000294 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557600000295 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 557600000296 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 557600000297 dimer interface [polypeptide binding]; other site 557600000298 phosphorylation site [posttranslational modification] 557600000299 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 557600000300 ATP binding site [chemical binding]; other site 557600000301 Mg2+ binding site [ion binding]; other site 557600000302 G-X-G motif; other site 557600000303 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 557600000304 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 557600000305 active site 557600000306 phosphorylation site [posttranslational modification] 557600000307 intermolecular recognition site; other site 557600000308 dimerization interface [polypeptide binding]; other site 557600000309 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 557600000310 DNA binding site [nucleotide binding] 557600000311 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600000312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600000313 short chain dehydrogenase; Provisional; Region: PRK07832 557600000314 NAD(P) binding site [chemical binding]; other site 557600000315 active site 557600000316 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 557600000317 MatE; Region: MatE; cl10513 557600000318 MatE; Region: MatE; cl10513 557600000319 methionine aminotransferase; Validated; Region: PRK09082 557600000320 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 557600000321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600000322 homodimer interface [polypeptide binding]; other site 557600000323 catalytic residue [active] 557600000324 Protein of unknown function (DUF445); Region: DUF445; pfam04286 557600000325 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 557600000326 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 557600000327 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 557600000328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 557600000329 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 557600000330 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557600000331 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 557600000332 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 557600000333 autolysin; Reviewed; Region: PRK06347 557600000334 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 557600000335 putative peptidoglycan binding site; other site 557600000336 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 557600000337 Bacterial SH3 domain; Region: SH3_3; cl02551 557600000338 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600000339 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600000340 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 557600000341 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 557600000342 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 557600000343 ATP binding site [chemical binding]; other site 557600000344 Mg2+ binding site [ion binding]; other site 557600000345 G-X-G motif; other site 557600000346 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 557600000347 anchoring element; other site 557600000348 dimer interface [polypeptide binding]; other site 557600000349 ATP binding site [chemical binding]; other site 557600000350 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 557600000351 active site 557600000352 metal binding site [ion binding]; metal-binding site 557600000353 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557600000354 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 557600000355 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 557600000356 allantoicase; Region: allantoicase; TIGR02961 557600000357 Allantoicase repeat; Region: Allantoicase; pfam03561 557600000358 Allantoicase repeat; Region: Allantoicase; pfam03561 557600000359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600000360 FAD binding domain; Region: FAD_binding_3; pfam01494 557600000361 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 557600000362 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 557600000363 xanthine permease; Region: pbuX; TIGR03173 557600000364 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 557600000365 active site 557600000366 homotetramer interface [polypeptide binding]; other site 557600000367 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 557600000368 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 557600000369 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 557600000370 active site 557600000371 catalytic site [active] 557600000372 tetramer interface [polypeptide binding]; other site 557600000373 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cl00250 557600000374 30S subunit binding site; other site 557600000375 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 557600000376 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 557600000377 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 557600000378 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 557600000379 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 557600000380 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 557600000381 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557600000382 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600000383 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557600000384 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 557600000385 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 557600000386 ArsC family; Region: ArsC; pfam03960 557600000387 putative catalytic residues [active] 557600000388 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 557600000389 putative active site [active] 557600000390 putative catalytic site [active] 557600000391 putative DNA binding site [nucleotide binding]; other site 557600000392 putative phosphate binding site [ion binding]; other site 557600000393 metal binding site A [ion binding]; metal-binding site 557600000394 putative AP binding site [nucleotide binding]; other site 557600000395 putative metal binding site B [ion binding]; other site 557600000396 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 557600000397 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557600000398 active site 557600000399 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557600000400 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600000401 N-terminal plug; other site 557600000402 ligand-binding site [chemical binding]; other site 557600000403 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 557600000404 glutathione synthetase; Provisional; Region: PRK05246 557600000405 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 557600000406 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600000407 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 557600000408 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 557600000409 active site 557600000410 homodimer interface [polypeptide binding]; other site 557600000411 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 557600000412 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557600000413 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557600000414 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557600000415 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 557600000416 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 557600000417 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600000418 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 557600000419 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 557600000420 Cell division protein FtsQ; Region: FtsQ; pfam03799 557600000421 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 557600000422 Cell division protein FtsA; Region: FtsA; cl11496 557600000423 Cell division protein FtsA; Region: FtsA; cl11496 557600000424 cell division protein FtsZ; Validated; Region: PRK09330 557600000425 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 557600000426 nucleotide binding site [chemical binding]; other site 557600000427 SulA interaction site; other site 557600000428 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 557600000429 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 557600000430 Peptidase family M23; Region: Peptidase_M23; pfam01551 557600000431 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 557600000432 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 557600000433 dimer interface [polypeptide binding]; other site 557600000434 TPP-binding site [chemical binding]; other site 557600000435 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 557600000436 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 557600000437 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 557600000438 E3 interaction surface; other site 557600000439 lipoyl attachment site [posttranslational modification]; other site 557600000440 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 557600000441 E3 interaction surface; other site 557600000442 lipoyl attachment site [posttranslational modification]; other site 557600000443 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 557600000444 E3 interaction surface; other site 557600000445 lipoyl attachment site [posttranslational modification]; other site 557600000446 e3 binding domain; Region: E3_binding; pfam02817 557600000447 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 557600000448 Predicted membrane protein [Function unknown]; Region: COG2119 557600000449 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 557600000450 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 557600000451 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 557600000452 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600000453 N-terminal plug; other site 557600000454 ligand-binding site [chemical binding]; other site 557600000455 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600000456 Flagellin N-methylase; Region: FliB; cl00497 557600000457 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 557600000458 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 557600000459 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 557600000460 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 557600000461 active site 557600000462 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 557600000463 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 557600000464 active site 557600000465 substrate binding site [chemical binding]; other site 557600000466 metal binding site [ion binding]; metal-binding site 557600000467 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 557600000468 DHH family; Region: DHH; pfam01368 557600000469 DHHA1 domain; Region: DHHA1; pfam02272 557600000470 peptide chain release factor 2; Provisional; Region: PRK08787 557600000471 RF-1 domain; Region: RF-1; cl02875 557600000472 RF-1 domain; Region: RF-1; cl02875 557600000473 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 557600000474 putative DNA binding site [nucleotide binding]; other site 557600000475 dimerization interface [polypeptide binding]; other site 557600000476 putative Zn2+ binding site [ion binding]; other site 557600000477 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 557600000478 FMN binding site [chemical binding]; other site 557600000479 active site 557600000480 substrate binding site [chemical binding]; other site 557600000481 catalytic residue [active] 557600000482 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 557600000483 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 557600000484 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 557600000485 OpgC protein; Region: OpgC_C; cl00792 557600000486 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557600000487 Protein of unknown function (DUF805); Region: DUF805; cl01224 557600000488 acetyl-CoA synthetase; Provisional; Region: PRK00174 557600000489 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 557600000490 AMP-binding enzyme; Region: AMP-binding; cl15778 557600000491 AMP-binding enzyme; Region: AMP-binding; cl15778 557600000492 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600000493 Isochorismatase family; Region: Isochorismatase; pfam00857 557600000494 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 557600000495 catalytic triad [active] 557600000496 conserved cis-peptide bond; other site 557600000497 Helix-turn-helix domains; Region: HTH; cl00088 557600000498 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 557600000499 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 557600000500 active site 557600000501 dimer interface [polypeptide binding]; other site 557600000502 non-prolyl cis peptide bond; other site 557600000503 insertion regions; other site 557600000504 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600000505 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557600000506 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 557600000507 active site 557600000508 phosphorylation site [posttranslational modification] 557600000509 intermolecular recognition site; other site 557600000510 dimerization interface [polypeptide binding]; other site 557600000511 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 557600000512 DNA binding residues [nucleotide binding] 557600000513 dimerization interface [polypeptide binding]; other site 557600000514 Sodium:solute symporter family; Region: SSF; cl00456 557600000515 PAS fold; Region: PAS_7; pfam12860 557600000516 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 557600000517 dimer interface [polypeptide binding]; other site 557600000518 phosphorylation site [posttranslational modification] 557600000519 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 557600000520 ATP binding site [chemical binding]; other site 557600000521 Mg2+ binding site [ion binding]; other site 557600000522 G-X-G motif; other site 557600000523 Response regulator receiver domain; Region: Response_reg; pfam00072 557600000524 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 557600000525 active site 557600000526 phosphorylation site [posttranslational modification] 557600000527 intermolecular recognition site; other site 557600000528 dimerization interface [polypeptide binding]; other site 557600000529 Protein of unknown function, DUF485; Region: DUF485; cl01231 557600000530 Sodium:solute symporter family; Region: SSF; cl00456 557600000531 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 557600000532 BCCT family transporter; Region: BCCT; cl00569 557600000533 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557600000534 metal binding site [ion binding]; metal-binding site 557600000535 active site 557600000536 I-site; other site 557600000537 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 557600000538 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 557600000539 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 557600000540 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 557600000541 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600000542 Helix-turn-helix domains; Region: HTH; cl00088 557600000543 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 557600000544 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 557600000545 putative NAD(P) binding site [chemical binding]; other site 557600000546 putative dimer interface [polypeptide binding]; other site 557600000547 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 557600000548 GlpM protein; Region: GlpM; cl01212 557600000549 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 557600000550 Integral membrane protein TerC family; Region: TerC; cl10468 557600000551 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 557600000552 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600000553 putative substrate translocation pore; other site 557600000554 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 557600000555 dimer interface [polypeptide binding]; other site 557600000556 ssDNA binding site [nucleotide binding]; other site 557600000557 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557600000558 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 557600000559 AzlC protein; Region: AzlC; cl00570 557600000560 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 557600000561 non-specific DNA binding site [nucleotide binding]; other site 557600000562 salt bridge; other site 557600000563 sequence-specific DNA binding site [nucleotide binding]; other site 557600000564 Cupin domain; Region: Cupin_2; cl09118 557600000565 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 557600000566 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 557600000567 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600000568 DNA-binding site [nucleotide binding]; DNA binding site 557600000569 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 557600000570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600000571 homodimer interface [polypeptide binding]; other site 557600000572 catalytic residue [active] 557600000573 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 557600000574 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 557600000575 inhibitor-cofactor binding pocket; inhibition site 557600000576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600000577 catalytic residue [active] 557600000578 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600000579 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 557600000580 tetramerization interface [polypeptide binding]; other site 557600000581 NAD(P) binding site [chemical binding]; other site 557600000582 catalytic residues [active] 557600000583 LysR family transcriptional regulator; Provisional; Region: PRK14997 557600000584 Helix-turn-helix domains; Region: HTH; cl00088 557600000585 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600000586 dimerization interface [polypeptide binding]; other site 557600000587 Isochorismatase family; Region: Isochorismatase; pfam00857 557600000588 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 557600000589 catalytic triad [active] 557600000590 dimer interface [polypeptide binding]; other site 557600000591 conserved cis-peptide bond; other site 557600000592 Pirin-related protein [General function prediction only]; Region: COG1741 557600000593 Cupin domain; Region: Cupin_2; cl09118 557600000594 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 557600000595 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 557600000596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600000597 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 557600000598 S-adenosylmethionine binding site [chemical binding]; other site 557600000599 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 557600000600 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557600000601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600000602 CfrBI restriction endonuclease; Region: RE_CfrBI; pfam09516 557600000603 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 557600000604 G1 box; other site 557600000605 GTP/Mg2+ binding site [chemical binding]; other site 557600000606 Switch I region; other site 557600000607 G3 box; other site 557600000608 Switch II region; other site 557600000609 G4 box; other site 557600000610 G5 box; other site 557600000611 Predicted transcriptional regulator [Transcription]; Region: COG2378 557600000612 Helix-turn-helix domains; Region: HTH; cl00088 557600000613 WYL domain; Region: WYL; cl14852 557600000614 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 557600000615 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 557600000616 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600000617 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 557600000618 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 557600000619 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 557600000620 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600000621 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600000622 Helix-turn-helix domains; Region: HTH; cl00088 557600000623 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 557600000624 putative effector binding pocket; other site 557600000625 putative dimerization interface [polypeptide binding]; other site 557600000626 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 557600000627 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 557600000628 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 557600000629 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557600000630 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 557600000631 putative substrate translocation pore; other site 557600000632 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600000633 Helix-turn-helix domains; Region: HTH; cl00088 557600000634 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 557600000635 ATP binding site [chemical binding]; other site 557600000636 putative Mg++ binding site [ion binding]; other site 557600000637 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 557600000638 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 557600000639 active site 557600000640 DNA binding site [nucleotide binding] 557600000641 Int/Topo IB signature motif; other site 557600000642 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 557600000643 non-specific DNA binding site [nucleotide binding]; other site 557600000644 salt bridge; other site 557600000645 sequence-specific DNA binding site [nucleotide binding]; other site 557600000646 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 557600000647 non-specific DNA binding site [nucleotide binding]; other site 557600000648 salt bridge; other site 557600000649 sequence-specific DNA binding site [nucleotide binding]; other site 557600000650 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557600000651 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 557600000652 putative DNA binding site [nucleotide binding]; other site 557600000653 putative Zn2+ binding site [ion binding]; other site 557600000654 Helix-turn-helix domains; Region: HTH; cl00088 557600000655 AzlC protein; Region: AzlC; cl00570 557600000656 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 557600000657 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 557600000658 putative substrate translocation pore; other site 557600000659 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557600000660 Helix-turn-helix domains; Region: HTH; cl00088 557600000661 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 557600000662 putative dimerization interface [polypeptide binding]; other site 557600000663 putative substrate binding pocket [chemical binding]; other site 557600000664 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557600000665 EamA-like transporter family; Region: EamA; cl01037 557600000666 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 557600000667 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 557600000668 active site 557600000669 catalytic tetrad [active] 557600000670 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600000671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600000672 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600000673 Helix-turn-helix domains; Region: HTH; cl00088 557600000674 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 557600000675 Helix-turn-helix domains; Region: HTH; cl00088 557600000676 Helix-turn-helix domains; Region: HTH; cl00088 557600000677 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600000678 Helix-turn-helix domain; Region: HTH_18; pfam12833 557600000679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600000680 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557600000681 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600000682 potassium uptake protein; Region: kup; TIGR00794 557600000683 K+ potassium transporter; Region: K_trans; cl15781 557600000684 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 557600000685 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 557600000686 active site 557600000687 substrate binding site [chemical binding]; other site 557600000688 Mg2+ binding site [ion binding]; other site 557600000689 LysE type translocator; Region: LysE; cl00565 557600000690 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 557600000691 amphipathic channel; other site 557600000692 Asn-Pro-Ala signature motifs; other site 557600000693 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600000694 Helix-turn-helix domain; Region: HTH_18; pfam12833 557600000695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600000696 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 557600000697 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 557600000698 substrate binding site [chemical binding]; other site 557600000699 glutamase interaction surface [polypeptide binding]; other site 557600000700 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 557600000701 Phosphotransferase enzyme family; Region: APH; pfam01636 557600000702 putative active site [active] 557600000703 putative substrate binding site [chemical binding]; other site 557600000704 ATP binding site [chemical binding]; other site 557600000705 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 557600000706 DNA-binding site [nucleotide binding]; DNA binding site 557600000707 RNA-binding motif; other site 557600000708 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 557600000709 Predicted membrane protein [Function unknown]; Region: COG3671 557600000710 EamA-like transporter family; Region: EamA; cl01037 557600000711 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557600000712 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 557600000713 non-specific DNA binding site [nucleotide binding]; other site 557600000714 salt bridge; other site 557600000715 sequence-specific DNA binding site [nucleotide binding]; other site 557600000716 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 557600000717 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 557600000718 catalytic residues [active] 557600000719 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 557600000720 catalytic site [active] 557600000721 putative active site [active] 557600000722 putative substrate binding site [chemical binding]; other site 557600000723 Protein of unknown function (DUF805); Region: DUF805; cl01224 557600000724 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 557600000725 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 557600000726 putative active site [active] 557600000727 oxyanion strand; other site 557600000728 catalytic triad [active] 557600000729 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 557600000730 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 557600000731 putative active site pocket [active] 557600000732 4-fold oligomerization interface [polypeptide binding]; other site 557600000733 metal binding residues [ion binding]; metal-binding site 557600000734 3-fold/trimer interface [polypeptide binding]; other site 557600000735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600000736 Coenzyme A binding pocket [chemical binding]; other site 557600000737 putative acetyltransferase; Provisional; Region: PRK03624 557600000738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600000739 Coenzyme A binding pocket [chemical binding]; other site 557600000740 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 557600000741 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 557600000742 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600000743 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 557600000744 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 557600000745 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 557600000746 dimer interface [polypeptide binding]; other site 557600000747 phosphorylation site [posttranslational modification] 557600000748 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 557600000749 ATP binding site [chemical binding]; other site 557600000750 Mg2+ binding site [ion binding]; other site 557600000751 G-X-G motif; other site 557600000752 osmolarity response regulator; Provisional; Region: ompR; PRK09468 557600000753 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 557600000754 active site 557600000755 phosphorylation site [posttranslational modification] 557600000756 intermolecular recognition site; other site 557600000757 dimerization interface [polypeptide binding]; other site 557600000758 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 557600000759 DNA binding site [nucleotide binding] 557600000760 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 557600000761 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 557600000762 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 557600000763 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 557600000764 RNA binding site [nucleotide binding]; other site 557600000765 putative transporter; Provisional; Region: PRK11660 557600000766 Sulfate transporter family; Region: Sulfate_transp; cl15842 557600000767 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 557600000768 active site clefts [active] 557600000769 zinc binding site [ion binding]; other site 557600000770 dimer interface [polypeptide binding]; other site 557600000771 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 557600000772 classical (c) SDRs; Region: SDR_c; cd05233 557600000773 NAD(P) binding site [chemical binding]; other site 557600000774 active site 557600000775 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 557600000776 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 557600000777 homodimer interface [polypeptide binding]; other site 557600000778 substrate-cofactor binding pocket; other site 557600000779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600000780 catalytic residue [active] 557600000781 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 557600000782 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 557600000783 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 557600000784 ABC transporter; Region: ABC_tran_2; pfam12848 557600000785 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 557600000786 hypothetical protein; Provisional; Region: PRK10215 557600000787 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 557600000788 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 557600000789 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 557600000790 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 557600000791 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 557600000792 Cation efflux family; Region: Cation_efflux; cl00316 557600000793 S-methylmethionine transporter; Provisional; Region: PRK11387 557600000794 Spore germination protein; Region: Spore_permease; cl15802 557600000795 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 557600000796 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557600000797 active site 557600000798 HIGH motif; other site 557600000799 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557600000800 active site 557600000801 KMSKS motif; other site 557600000802 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600000803 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557600000804 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 557600000805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600000806 Septum formation initiator; Region: DivIC; cl11433 557600000807 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 557600000808 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557600000809 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600000810 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 557600000811 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557600000812 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557600000813 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557600000814 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 557600000815 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557600000816 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557600000817 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 557600000818 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 557600000819 S-adenosylmethionine binding site [chemical binding]; other site 557600000820 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 557600000821 Transglycosylase; Region: Transgly; cl07896 557600000822 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600000823 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600000824 Competence protein A; Region: Competence_A; pfam11104 557600000825 Cell division protein FtsA; Region: FtsA; cl11496 557600000826 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 557600000827 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 557600000828 Pilus assembly protein, PilO; Region: PilO; cl01234 557600000829 Pilus assembly protein, PilP; Region: PilP; cl01235 557600000830 AMIN domain; Region: AMIN; pfam11741 557600000831 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 557600000832 Secretin and TonB N terminus short domain; Region: STN; cl06624 557600000833 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557600000834 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557600000835 shikimate kinase; Reviewed; Region: aroK; PRK00131 557600000836 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 557600000837 ADP binding site [chemical binding]; other site 557600000838 magnesium binding site [ion binding]; other site 557600000839 putative shikimate binding site; other site 557600000840 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 557600000841 active site 557600000842 dimer interface [polypeptide binding]; other site 557600000843 metal binding site [ion binding]; metal-binding site 557600000844 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 557600000845 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 557600000846 active site 557600000847 dimer interface [polypeptide binding]; other site 557600000848 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 557600000849 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 557600000850 active site 557600000851 FMN binding site [chemical binding]; other site 557600000852 substrate binding site [chemical binding]; other site 557600000853 3Fe-4S cluster binding site [ion binding]; other site 557600000854 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 557600000855 domain interface; other site 557600000856 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 557600000857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600000858 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600000859 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557600000860 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557600000861 LemA family; Region: LemA; cl00742 557600000862 Repair protein; Region: Repair_PSII; cl01535 557600000863 Repair protein; Region: Repair_PSII; cl01535 557600000864 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 557600000865 Pilin (bacterial filament); Region: Pilin; pfam00114 557600000866 O-Antigen ligase; Region: Wzy_C; cl04850 557600000867 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 557600000868 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 557600000869 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 557600000870 heme binding site [chemical binding]; other site 557600000871 ferroxidase pore; other site 557600000872 ferroxidase diiron center [ion binding]; other site 557600000873 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 557600000874 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 557600000875 homotrimer interaction site [polypeptide binding]; other site 557600000876 putative active site [active] 557600000877 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 557600000878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 557600000879 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557600000880 synthetase active site [active] 557600000881 NTP binding site [chemical binding]; other site 557600000882 metal binding site [ion binding]; metal-binding site 557600000883 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 557600000884 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600000885 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 557600000886 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 557600000887 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 557600000888 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 557600000889 catalytic site [active] 557600000890 G-X2-G-X-G-K; other site 557600000891 LytB protein; Region: LYTB; cl00507 557600000892 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 557600000893 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 557600000894 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 557600000895 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 557600000896 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 557600000897 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 557600000898 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 557600000899 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 557600000900 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 557600000901 RimM N-terminal domain; Region: RimM; pfam01782 557600000902 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 557600000903 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 557600000904 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 557600000905 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 557600000906 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600000907 lipase chaperone; Provisional; Region: PRK01294 557600000908 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 557600000909 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 557600000910 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 557600000911 RNA binding site [nucleotide binding]; other site 557600000912 active site 557600000913 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 557600000914 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557600000915 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 557600000916 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 557600000917 threonine and homoserine efflux system; Provisional; Region: PRK10532 557600000918 EamA-like transporter family; Region: EamA; cl01037 557600000919 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 557600000920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600000921 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 557600000922 L-serine binding site [chemical binding]; other site 557600000923 ACT domain interface; other site 557600000924 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557600000925 FAD binding domain; Region: FAD_binding_4; pfam01565 557600000926 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 557600000927 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600000928 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 557600000929 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 557600000930 putative substrate translocation pore; other site 557600000931 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 557600000932 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 557600000933 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 557600000934 E-class dimer interface [polypeptide binding]; other site 557600000935 P-class dimer interface [polypeptide binding]; other site 557600000936 active site 557600000937 Cu2+ binding site [ion binding]; other site 557600000938 Zn2+ binding site [ion binding]; other site 557600000939 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 557600000940 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557600000941 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557600000942 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 557600000943 P-loop; other site 557600000944 Magnesium ion binding site [ion binding]; other site 557600000945 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; cl01958 557600000946 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 557600000947 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 557600000948 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 557600000949 S-adenosylmethionine binding site [chemical binding]; other site 557600000950 S-methylmethionine transporter; Provisional; Region: PRK11387 557600000951 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 557600000952 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 557600000953 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 557600000954 NAD(P) binding site [chemical binding]; other site 557600000955 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 557600000956 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 557600000957 inhibitor-cofactor binding pocket; inhibition site 557600000958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600000959 catalytic residue [active] 557600000960 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 557600000961 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600000962 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 557600000963 NAD(P) binding site [chemical binding]; other site 557600000964 catalytic residues [active] 557600000965 Succinylarginine dihydrolase; Region: AstB; cl01511 557600000966 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 557600000967 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 557600000968 putative active site [active] 557600000969 Zn binding site [ion binding]; other site 557600000970 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 557600000971 active site 557600000972 catalytic residues [active] 557600000973 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600000974 Helix-turn-helix domains; Region: HTH; cl00088 557600000975 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600000976 dimerization interface [polypeptide binding]; other site 557600000977 EamA-like transporter family; Region: EamA; cl01037 557600000978 EamA-like transporter family; Region: EamA; cl01037 557600000979 YCII-related domain; Region: YCII; cl00999 557600000980 Protein of unknown function DUF262; Region: DUF262; cl14890 557600000981 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 557600000982 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 557600000983 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 557600000984 dimer interface [polypeptide binding]; other site 557600000985 motif 1; other site 557600000986 active site 557600000987 motif 2; other site 557600000988 motif 3; other site 557600000989 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 557600000990 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600000991 putative substrate translocation pore; other site 557600000992 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 557600000993 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 557600000994 FeS/SAM binding site; other site 557600000995 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 557600000996 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 557600000997 HPP family; Region: HPP; pfam04982 557600000998 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 557600000999 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 557600001000 PspC domain; Region: PspC; cl00864 557600001001 hypothetical protein; Provisional; Region: PRK11615 557600001002 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557600001003 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557600001004 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600001005 active site 557600001006 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557600001007 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 557600001008 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 557600001009 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 557600001010 shikimate binding site; other site 557600001011 NAD(P) binding site [chemical binding]; other site 557600001012 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 557600001013 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 557600001014 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 557600001015 dimerization interface [polypeptide binding]; other site 557600001016 active site 557600001017 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 557600001018 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 557600001019 TPP-binding site; other site 557600001020 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 557600001021 PYR/PP interface [polypeptide binding]; other site 557600001022 dimer interface [polypeptide binding]; other site 557600001023 TPP binding site [chemical binding]; other site 557600001024 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557600001025 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 557600001026 active site 557600001027 dimerization interface [polypeptide binding]; other site 557600001028 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 557600001029 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 557600001030 ATP binding site [chemical binding]; other site 557600001031 Mg++ binding site [ion binding]; other site 557600001032 motif III; other site 557600001033 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 557600001034 nucleotide binding region [chemical binding]; other site 557600001035 ATP-binding site [chemical binding]; other site 557600001036 transcription termination factor Rho; Provisional; Region: PRK12678 557600001037 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 557600001038 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 557600001039 Walker A/P-loop; other site 557600001040 ATP binding site [chemical binding]; other site 557600001041 Q-loop/lid; other site 557600001042 ABC transporter signature motif; other site 557600001043 Walker B; other site 557600001044 D-loop; other site 557600001045 H-loop/switch region; other site 557600001046 Permease; Region: Permease; cl00510 557600001047 mce related protein; Region: MCE; pfam02470 557600001048 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 557600001049 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 557600001050 anti sigma factor interaction site; other site 557600001051 regulatory phosphorylation site [posttranslational modification]; other site 557600001052 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 557600001053 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 557600001054 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 557600001055 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 557600001056 nudix motif; other site 557600001057 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 557600001058 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557600001059 active site 557600001060 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 557600001061 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 557600001062 ssDNA binding site; other site 557600001063 generic binding surface II; other site 557600001064 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 557600001065 ATP binding site [chemical binding]; other site 557600001066 putative Mg++ binding site [ion binding]; other site 557600001067 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 557600001068 nucleotide binding region [chemical binding]; other site 557600001069 ATP-binding site [chemical binding]; other site 557600001070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600001071 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557600001072 NAD(P) binding site [chemical binding]; other site 557600001073 active site 557600001074 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 557600001075 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 557600001076 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 557600001077 putative acyl-acceptor binding pocket; other site 557600001078 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 557600001079 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 557600001080 active site 557600001081 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 557600001082 catalytic triad [active] 557600001083 dimer interface [polypeptide binding]; other site 557600001084 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 557600001085 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557600001086 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557600001087 Predicted GTPase [General function prediction only]; Region: COG0218 557600001088 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 557600001089 G1 box; other site 557600001090 GTP/Mg2+ binding site [chemical binding]; other site 557600001091 Switch I region; other site 557600001092 G2 box; other site 557600001093 G3 box; other site 557600001094 Switch II region; other site 557600001095 G4 box; other site 557600001096 G5 box; other site 557600001097 Predicted transcriptional regulator [Transcription]; Region: COG1959 557600001098 Helix-turn-helix domains; Region: HTH; cl00088 557600001099 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 557600001100 heme-binding site [chemical binding]; other site 557600001101 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 557600001102 FAD binding pocket [chemical binding]; other site 557600001103 conserved FAD binding motif [chemical binding]; other site 557600001104 phosphate binding motif [ion binding]; other site 557600001105 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 557600001106 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 557600001107 Walker A motif; other site 557600001108 ATP binding site [chemical binding]; other site 557600001109 Walker B motif; other site 557600001110 cystathionine beta-lyase; Provisional; Region: PRK07050 557600001111 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 557600001112 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557600001113 catalytic residue [active] 557600001114 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 557600001115 catalytic triad [active] 557600001116 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 557600001117 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 557600001118 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 557600001119 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 557600001120 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 557600001121 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 557600001122 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 557600001123 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 557600001124 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 557600001125 putative translocon binding site; other site 557600001126 protein-rRNA interface [nucleotide binding]; other site 557600001127 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 557600001128 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 557600001129 G-X-X-G motif; other site 557600001130 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 557600001131 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 557600001132 23S rRNA interface [nucleotide binding]; other site 557600001133 5S rRNA interface [nucleotide binding]; other site 557600001134 putative antibiotic binding site [chemical binding]; other site 557600001135 L25 interface [polypeptide binding]; other site 557600001136 L27 interface [polypeptide binding]; other site 557600001137 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 557600001138 23S rRNA interface [nucleotide binding]; other site 557600001139 putative translocon interaction site; other site 557600001140 signal recognition particle (SRP54) interaction site; other site 557600001141 L23 interface [polypeptide binding]; other site 557600001142 trigger factor interaction site; other site 557600001143 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 557600001144 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 557600001145 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 557600001146 KOW motif; Region: KOW; cl00354 557600001147 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 557600001148 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 557600001149 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 557600001150 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 557600001151 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 557600001152 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 557600001153 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557600001154 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557600001155 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 557600001156 5S rRNA interface [nucleotide binding]; other site 557600001157 23S rRNA interface [nucleotide binding]; other site 557600001158 L5 interface [polypeptide binding]; other site 557600001159 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 557600001160 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 557600001161 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 557600001162 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 557600001163 23S rRNA binding site [nucleotide binding]; other site 557600001164 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 557600001165 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 557600001166 SecY translocase; Region: SecY; pfam00344 557600001167 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 557600001168 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 557600001169 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 557600001170 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 557600001171 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 557600001172 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 557600001173 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 557600001174 RNA binding surface [nucleotide binding]; other site 557600001175 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 557600001176 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 557600001177 alphaNTD homodimer interface [polypeptide binding]; other site 557600001178 alphaNTD - beta interaction site [polypeptide binding]; other site 557600001179 alphaNTD - beta' interaction site [polypeptide binding]; other site 557600001180 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 557600001181 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 557600001182 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557600001183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600001184 NAD(P) binding pocket [chemical binding]; other site 557600001185 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600001186 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600001187 active site 557600001188 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 557600001189 Rhomboid family; Region: Rhomboid; cl11446 557600001190 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 557600001191 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 557600001192 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 557600001193 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 557600001194 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 557600001195 active site 557600001196 Zn binding site [ion binding]; other site 557600001197 ribonuclease R; Region: RNase_R; TIGR02063 557600001198 RNB domain; Region: RNB; pfam00773 557600001199 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 557600001200 RNA binding site [nucleotide binding]; other site 557600001201 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 557600001202 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 557600001203 dimer interface [polypeptide binding]; other site 557600001204 FMN binding site [chemical binding]; other site 557600001205 YcxB-like protein; Region: YcxB; pfam14317 557600001206 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 557600001207 Cupin domain; Region: Cupin_2; cl09118 557600001208 Helix-turn-helix domain; Region: HTH_18; pfam12833 557600001209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600001210 EamA-like transporter family; Region: EamA; cl01037 557600001211 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557600001212 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 557600001213 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600001214 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 557600001215 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557600001216 active site 557600001217 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 557600001218 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 557600001219 Gram-negative bacterial tonB protein; Region: TonB; cl10048 557600001220 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 557600001221 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 557600001222 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600001223 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 557600001224 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 557600001225 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 557600001226 FeS/SAM binding site; other site 557600001227 TRAM domain; Region: TRAM; cl01282 557600001228 lytic murein transglycosylase; Provisional; Region: PRK11619 557600001229 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 557600001230 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557600001231 catalytic residue [active] 557600001232 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 557600001233 B2 nucleotide binding pocket [chemical binding]; other site 557600001234 CAS motifs; other site 557600001235 active site 557600001236 B1 nucleotide binding pocket [chemical binding]; other site 557600001237 malate dehydrogenase; Provisional; Region: PRK05442 557600001238 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 557600001239 NAD(P) binding site [chemical binding]; other site 557600001240 dimer interface [polypeptide binding]; other site 557600001241 malate binding site [chemical binding]; other site 557600001242 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 557600001243 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 557600001244 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 557600001245 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 557600001246 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 557600001247 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 557600001248 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 557600001249 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 557600001250 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 557600001251 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600001252 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600001253 active site 557600001254 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600001255 Helix-turn-helix domains; Region: HTH; cl00088 557600001256 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 557600001257 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 557600001258 NAD(P) binding site [chemical binding]; other site 557600001259 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557600001260 substrate binding site [chemical binding]; other site 557600001261 homotetramer interface [polypeptide binding]; other site 557600001262 active site 557600001263 homodimer interface [polypeptide binding]; other site 557600001264 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 557600001265 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 557600001266 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 557600001267 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600001268 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600001269 active site 557600001270 enoyl-CoA hydratase; Provisional; Region: PRK05995 557600001271 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600001272 substrate binding site [chemical binding]; other site 557600001273 oxyanion hole (OAH) forming residues; other site 557600001274 trimer interface [polypeptide binding]; other site 557600001275 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 557600001276 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557600001277 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600001278 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 557600001279 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 557600001280 carboxyltransferase (CT) interaction site; other site 557600001281 biotinylation site [posttranslational modification]; other site 557600001282 Stringent starvation protein B; Region: SspB; cl01120 557600001283 stringent starvation protein A; Provisional; Region: sspA; PRK09481 557600001284 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557600001285 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 557600001286 dimer interface [polypeptide binding]; other site 557600001287 N-terminal domain interface [polypeptide binding]; other site 557600001288 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 557600001289 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 557600001290 23S rRNA interface [nucleotide binding]; other site 557600001291 L3 interface [polypeptide binding]; other site 557600001292 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 557600001293 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 557600001294 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 557600001295 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 557600001296 active site 557600001297 metal binding site [ion binding]; metal-binding site 557600001298 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 557600001299 LrgB-like family; Region: LrgB; cl00596 557600001300 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 557600001301 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 557600001302 HflX GTPase family; Region: HflX; cd01878 557600001303 G1 box; other site 557600001304 GTP/Mg2+ binding site [chemical binding]; other site 557600001305 Switch I region; other site 557600001306 G2 box; other site 557600001307 G3 box; other site 557600001308 Switch II region; other site 557600001309 G4 box; other site 557600001310 G5 box; other site 557600001311 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 557600001312 putative active site [active] 557600001313 catalytic site [active] 557600001314 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 557600001315 PLD-like domain; Region: PLDc_2; pfam13091 557600001316 putative active site [active] 557600001317 catalytic site [active] 557600001318 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 557600001319 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557600001320 putative active site [active] 557600001321 putative metal binding site [ion binding]; other site 557600001322 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557600001323 ligand binding site [chemical binding]; other site 557600001324 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 557600001325 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557600001326 metal binding site [ion binding]; metal-binding site 557600001327 active site 557600001328 I-site; other site 557600001329 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 557600001330 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 557600001331 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600001332 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557600001333 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 557600001334 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600001335 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600001336 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 557600001337 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 557600001338 CoenzymeA binding site [chemical binding]; other site 557600001339 subunit interaction site [polypeptide binding]; other site 557600001340 PHB binding site; other site 557600001341 Protein of unknown function (DUF520); Region: DUF520; cl00723 557600001342 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 557600001343 active site residue [active] 557600001344 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 557600001345 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 557600001346 YCII-related domain; Region: YCII; cl00999 557600001347 Intracellular septation protein A; Region: IspA; cl01098 557600001348 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 557600001349 Domain of unknown function (DUF365); Region: DUF365; cl00889 557600001350 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 557600001351 hypothetical protein; Reviewed; Region: PRK00024 557600001352 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 557600001353 MPN+ (JAMM) motif; other site 557600001354 Zinc-binding site [ion binding]; other site 557600001355 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 557600001356 Flavoprotein; Region: Flavoprotein; cl08021 557600001357 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 557600001358 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 557600001359 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 557600001360 Protein export membrane protein; Region: SecD_SecF; cl14618 557600001361 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 557600001362 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 557600001363 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 557600001364 Protein export membrane protein; Region: SecD_SecF; cl14618 557600001365 Preprotein translocase subunit; Region: YajC; cl00806 557600001366 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 557600001367 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 557600001368 LemA family; Region: LemA; cl00742 557600001369 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 557600001370 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 557600001371 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 557600001372 dimer interface [polypeptide binding]; other site 557600001373 phosphorylation site [posttranslational modification] 557600001374 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 557600001375 ATP binding site [chemical binding]; other site 557600001376 Mg2+ binding site [ion binding]; other site 557600001377 G-X-G motif; other site 557600001378 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 557600001379 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557600001380 metal binding triad; other site 557600001381 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 557600001382 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557600001383 metal binding triad; other site 557600001384 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 557600001385 homodimer interface [polypeptide binding]; other site 557600001386 substrate-cofactor binding pocket; other site 557600001387 catalytic residue [active] 557600001388 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 557600001389 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 557600001390 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 557600001391 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 557600001392 putative active site [active] 557600001393 putative metal binding site [ion binding]; other site 557600001394 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 557600001395 putative metal binding site; other site 557600001396 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 557600001397 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 557600001398 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 557600001399 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 557600001400 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 557600001401 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 557600001402 dimer interface [polypeptide binding]; other site 557600001403 anticodon binding site; other site 557600001404 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 557600001405 homodimer interface [polypeptide binding]; other site 557600001406 motif 1; other site 557600001407 active site 557600001408 motif 2; other site 557600001409 GAD domain; Region: GAD; pfam02938 557600001410 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 557600001411 active site 557600001412 motif 3; other site 557600001413 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 557600001414 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557600001415 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600001416 N-terminal plug; other site 557600001417 ligand-binding site [chemical binding]; other site 557600001418 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 557600001419 putative active site [active] 557600001420 putative catalytic site [active] 557600001421 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 557600001422 PLD-like domain; Region: PLDc_2; pfam13091 557600001423 putative active site [active] 557600001424 putative catalytic site [active] 557600001425 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 557600001426 Phosphate-starvation-inducible E; Region: PsiE; cl01264 557600001427 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557600001428 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557600001429 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600001430 active site 557600001431 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557600001432 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557600001433 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557600001434 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600001435 active site 557600001436 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557600001437 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 557600001438 dimerization interface [polypeptide binding]; other site 557600001439 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 557600001440 dimer interface [polypeptide binding]; other site 557600001441 phosphorylation site [posttranslational modification] 557600001442 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 557600001443 ATP binding site [chemical binding]; other site 557600001444 Mg2+ binding site [ion binding]; other site 557600001445 G-X-G motif; other site 557600001446 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 557600001447 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 557600001448 active site 557600001449 phosphorylation site [posttranslational modification] 557600001450 intermolecular recognition site; other site 557600001451 dimerization interface [polypeptide binding]; other site 557600001452 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 557600001453 DNA binding site [nucleotide binding] 557600001454 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 557600001455 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 557600001456 Di-iron ligands [ion binding]; other site 557600001457 META domain; Region: META; cl01245 557600001458 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 557600001459 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 557600001460 active site 557600001461 catalytic site [active] 557600001462 metal binding site [ion binding]; metal-binding site 557600001463 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 557600001464 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 557600001465 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600001466 N-terminal plug; other site 557600001467 ligand-binding site [chemical binding]; other site 557600001468 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 557600001469 active site 557600001470 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 557600001471 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 557600001472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600001473 catalytic residue [active] 557600001474 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 557600001475 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 557600001476 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557600001477 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557600001478 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600001479 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600001480 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 557600001481 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 557600001482 substrate binding site [chemical binding]; other site 557600001483 active site 557600001484 catalytic residues [active] 557600001485 heterodimer interface [polypeptide binding]; other site 557600001486 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 557600001487 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 557600001488 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 557600001489 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557600001490 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557600001491 Sporulation related domain; Region: SPOR; cl10051 557600001492 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 557600001493 active site 557600001494 catalytic residues [active] 557600001495 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600001496 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 557600001497 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 557600001498 dimer interface [polypeptide binding]; other site 557600001499 decamer (pentamer of dimers) interface [polypeptide binding]; other site 557600001500 catalytic triad [active] 557600001501 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 557600001502 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600001503 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 557600001504 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 557600001505 SEC-C motif; Region: SEC-C; pfam02810 557600001506 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 557600001507 metabolite-proton symporter; Region: 2A0106; TIGR00883 557600001508 putative substrate translocation pore; other site 557600001509 Haemolysin-III related; Region: HlyIII; cl03831 557600001510 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557600001511 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 557600001512 S-adenosylmethionine binding site [chemical binding]; other site 557600001513 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600001514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600001515 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 557600001516 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 557600001517 active site 557600001518 nucleophile elbow; other site 557600001519 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 557600001520 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600001521 substrate binding site [chemical binding]; other site 557600001522 oxyanion hole (OAH) forming residues; other site 557600001523 trimer interface [polypeptide binding]; other site 557600001524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600001525 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557600001526 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557600001527 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600001528 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 557600001529 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 557600001530 dimer interface [polypeptide binding]; other site 557600001531 active site 557600001532 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600001533 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600001534 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600001535 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557600001536 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557600001537 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 557600001538 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 557600001539 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 557600001540 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 557600001541 Trp docking motif [polypeptide binding]; other site 557600001542 putative active site [active] 557600001543 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 557600001544 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557600001545 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557600001546 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 557600001547 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 557600001548 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557600001549 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 557600001550 dimer interface [polypeptide binding]; other site 557600001551 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 557600001552 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 557600001553 dimer interface [polypeptide binding]; other site 557600001554 active site 557600001555 Type II transport protein GspH; Region: GspH; pfam12019 557600001556 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 557600001557 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557600001558 ligand binding site [chemical binding]; other site 557600001559 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 557600001560 hypothetical protein; Reviewed; Region: PRK09588 557600001561 lysine transporter; Provisional; Region: PRK10836 557600001562 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 557600001563 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 557600001564 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 557600001565 S-adenosylmethionine binding site [chemical binding]; other site 557600001566 xanthine permease; Region: pbuX; TIGR03173 557600001567 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 557600001568 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 557600001569 G1 box; other site 557600001570 putative GEF interaction site [polypeptide binding]; other site 557600001571 GTP/Mg2+ binding site [chemical binding]; other site 557600001572 Switch I region; other site 557600001573 G2 box; other site 557600001574 G3 box; other site 557600001575 Switch II region; other site 557600001576 G4 box; other site 557600001577 G5 box; other site 557600001578 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 557600001579 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 557600001580 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 557600001581 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 557600001582 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 557600001583 putative active site pocket [active] 557600001584 dimerization interface [polypeptide binding]; other site 557600001585 putative catalytic residue [active] 557600001586 PPIC-type PPIASE domain; Region: Rotamase; cl08278 557600001587 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 557600001588 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 557600001589 DNA binding site [nucleotide binding] 557600001590 catalytic residue [active] 557600001591 H2TH interface [polypeptide binding]; other site 557600001592 putative catalytic residues [active] 557600001593 turnover-facilitating residue; other site 557600001594 intercalation triad [nucleotide binding]; other site 557600001595 8OG recognition residue [nucleotide binding]; other site 557600001596 putative reading head residues; other site 557600001597 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 557600001598 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557600001599 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 557600001600 active site 557600001601 DNA binding site [nucleotide binding] 557600001602 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557600001603 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600001604 N-terminal plug; other site 557600001605 ligand-binding site [chemical binding]; other site 557600001606 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 557600001607 active site 557600001608 FMN binding site [chemical binding]; other site 557600001609 substrate binding site [chemical binding]; other site 557600001610 homotetramer interface [polypeptide binding]; other site 557600001611 catalytic residue [active] 557600001612 Membrane transport protein; Region: Mem_trans; cl09117 557600001613 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557600001614 Sel1 repeat; Region: Sel1; cl02723 557600001615 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 557600001616 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 557600001617 dimerization domain [polypeptide binding]; other site 557600001618 dimer interface [polypeptide binding]; other site 557600001619 catalytic residues [active] 557600001620 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 557600001621 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 557600001622 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 557600001623 putative hydrophobic ligand binding site [chemical binding]; other site 557600001624 Protein of unknown function, DUF488; Region: DUF488; cl01246 557600001625 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 557600001626 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 557600001627 PhnA protein; Region: PhnA; pfam03831 557600001628 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 557600001629 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 557600001630 prolyl-tRNA synthetase; Provisional; Region: PRK09194 557600001631 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 557600001632 dimer interface [polypeptide binding]; other site 557600001633 motif 1; other site 557600001634 active site 557600001635 motif 2; other site 557600001636 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 557600001637 putative deacylase active site [active] 557600001638 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 557600001639 active site 557600001640 motif 3; other site 557600001641 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 557600001642 anticodon binding site; other site 557600001643 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 557600001644 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557600001645 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 557600001646 Response regulator receiver domain; Region: Response_reg; pfam00072 557600001647 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 557600001648 active site 557600001649 phosphorylation site [posttranslational modification] 557600001650 intermolecular recognition site; other site 557600001651 dimerization interface [polypeptide binding]; other site 557600001652 Response regulator receiver domain; Region: Response_reg; pfam00072 557600001653 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 557600001654 active site 557600001655 phosphorylation site [posttranslational modification] 557600001656 intermolecular recognition site; other site 557600001657 dimerization interface [polypeptide binding]; other site 557600001658 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 557600001659 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 557600001660 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 557600001661 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 557600001662 dimer interface [polypeptide binding]; other site 557600001663 putative CheW interface [polypeptide binding]; other site 557600001664 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 557600001665 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 557600001666 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 557600001667 putative binding surface; other site 557600001668 active site 557600001669 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 557600001670 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 557600001671 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 557600001672 ATP binding site [chemical binding]; other site 557600001673 Mg2+ binding site [ion binding]; other site 557600001674 G-X-G motif; other site 557600001675 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 557600001676 Response regulator receiver domain; Region: Response_reg; pfam00072 557600001677 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 557600001678 active site 557600001679 phosphorylation site [posttranslational modification] 557600001680 intermolecular recognition site; other site 557600001681 dimerization interface [polypeptide binding]; other site 557600001682 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 557600001683 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 557600001684 FeS/SAM binding site; other site 557600001685 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600001686 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600001687 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 557600001688 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 557600001689 metal binding site [ion binding]; metal-binding site 557600001690 dimer interface [polypeptide binding]; other site 557600001691 Entericidin EcnA/B family; Region: Entericidin; cl02322 557600001692 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 557600001693 Protein of unknown function (DUF454); Region: DUF454; cl01063 557600001694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 557600001695 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 557600001696 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 557600001697 putative active site [active] 557600001698 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557600001699 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 557600001700 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 557600001701 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 557600001702 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600001703 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 557600001704 FAD binding pocket [chemical binding]; other site 557600001705 FAD binding motif [chemical binding]; other site 557600001706 catalytic residues [active] 557600001707 NAD binding pocket [chemical binding]; other site 557600001708 phosphate binding motif [ion binding]; other site 557600001709 beta-alpha-beta structure motif; other site 557600001710 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 557600001711 YcxB-like protein; Region: YcxB; pfam14317 557600001712 hypothetical membrane protein, TIGR01666; Region: YCCS 557600001713 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 557600001714 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 557600001715 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 557600001716 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 557600001717 putative substrate translocation pore; other site 557600001718 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 557600001719 putative FMN binding site [chemical binding]; other site 557600001720 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 557600001721 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 557600001722 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 557600001723 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 557600001724 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 557600001725 active site 557600001726 nucleophile elbow; other site 557600001727 threonine dehydratase; Provisional; Region: PRK07334 557600001728 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 557600001729 tetramer interface [polypeptide binding]; other site 557600001730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600001731 catalytic residue [active] 557600001732 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 557600001733 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 557600001734 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 557600001735 intracellular protease, PfpI family; Region: PfpI; TIGR01382 557600001736 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 557600001737 conserved cys residue [active] 557600001738 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 557600001739 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 557600001740 GatB domain; Region: GatB_Yqey; cl11497 557600001741 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 557600001742 Amidase; Region: Amidase; cl11426 557600001743 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 557600001744 rod shape-determining protein MreB; Provisional; Region: PRK13927 557600001745 Cell division protein FtsA; Region: FtsA; cl11496 557600001746 rod shape-determining protein MreC; Provisional; Region: PRK13922 557600001747 rod shape-determining protein MreC; Region: MreC; pfam04085 557600001748 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 557600001749 active site 557600001750 dimer interface [polypeptide binding]; other site 557600001751 ribonuclease G; Provisional; Region: PRK11712 557600001752 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 557600001753 homodimer interface [polypeptide binding]; other site 557600001754 oligonucleotide binding site [chemical binding]; other site 557600001755 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 557600001756 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 557600001757 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 557600001758 Active Sites [active] 557600001759 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 557600001760 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 557600001761 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 557600001762 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600001763 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600001764 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600001765 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 557600001766 putative di-iron ligands [ion binding]; other site 557600001767 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 557600001768 Mrr N-terminal domain; Region: Mrr_N; pfam14338 557600001769 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 557600001770 Bacitracin resistance protein BacA; Region: BacA; cl00858 557600001771 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 557600001772 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600001773 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600001774 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600001775 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 557600001776 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 557600001777 NAD(P) binding site [chemical binding]; other site 557600001778 chaperone protein HchA; Provisional; Region: PRK04155 557600001779 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 557600001780 conserved cys residue [active] 557600001781 aromatic amino acid transporter; Provisional; Region: PRK10238 557600001782 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 557600001783 PrpF protein; Region: PrpF; pfam04303 557600001784 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557600001785 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557600001786 substrate binding pocket [chemical binding]; other site 557600001787 chain length determination region; other site 557600001788 substrate-Mg2+ binding site; other site 557600001789 catalytic residues [active] 557600001790 aspartate-rich region 1; other site 557600001791 active site lid residues [active] 557600001792 aspartate-rich region 2; other site 557600001793 Protein of unknown function (DUF419); Region: DUF419; cl15265 557600001794 Protein of unknown function (DUF419); Region: DUF419; cl15265 557600001795 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 557600001796 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 557600001797 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 557600001798 hypothetical protein; Provisional; Region: PRK10279 557600001799 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 557600001800 nucleophile elbow; other site 557600001801 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 557600001802 putative acyl-acceptor binding pocket; other site 557600001803 muropeptide transporter; Validated; Region: ampG; PRK11010 557600001804 muropeptide transporter; Reviewed; Region: ampG; PRK11902 557600001805 Porin subfamily; Region: Porin_2; pfam02530 557600001806 putative metal dependent hydrolase; Provisional; Region: PRK11598 557600001807 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 557600001808 Sulfatase; Region: Sulfatase; cl10460 557600001809 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557600001810 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 557600001811 active site 557600001812 phosphorylation site [posttranslational modification] 557600001813 intermolecular recognition site; other site 557600001814 dimerization interface [polypeptide binding]; other site 557600001815 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 557600001816 DNA binding site [nucleotide binding] 557600001817 sensor protein QseC; Provisional; Region: PRK10337 557600001818 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 557600001819 dimer interface [polypeptide binding]; other site 557600001820 phosphorylation site [posttranslational modification] 557600001821 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 557600001822 ATP binding site [chemical binding]; other site 557600001823 Mg2+ binding site [ion binding]; other site 557600001824 G-X-G motif; other site 557600001825 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 557600001826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600001827 Helix-turn-helix domains; Region: HTH; cl00088 557600001828 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 557600001829 dimerization interface [polypeptide binding]; other site 557600001830 Membrane transport protein; Region: Mem_trans; cl09117 557600001831 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 557600001832 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 557600001833 HIGH motif; other site 557600001834 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557600001835 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 557600001836 active site 557600001837 KMSKS motif; other site 557600001838 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 557600001839 tRNA binding surface [nucleotide binding]; other site 557600001840 anticodon binding site; other site 557600001841 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 557600001842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600001843 short chain dehydrogenase; Provisional; Region: PRK06181 557600001844 NAD(P) binding site [chemical binding]; other site 557600001845 active site 557600001846 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 557600001847 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 557600001848 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 557600001849 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557600001850 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 557600001851 Protein export membrane protein; Region: SecD_SecF; cl14618 557600001852 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 557600001853 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 557600001854 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 557600001855 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 557600001856 active site 557600001857 Site-specific recombinase; Region: SpecificRecomb; cl15411 557600001858 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557600001859 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557600001860 substrate binding pocket [chemical binding]; other site 557600001861 chain length determination region; other site 557600001862 substrate-Mg2+ binding site; other site 557600001863 catalytic residues [active] 557600001864 aspartate-rich region 1; other site 557600001865 active site lid residues [active] 557600001866 aspartate-rich region 2; other site 557600001867 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 557600001868 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 557600001869 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 557600001870 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 557600001871 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 557600001872 seryl-tRNA synthetase; Provisional; Region: PRK05431 557600001873 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 557600001874 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 557600001875 dimer interface [polypeptide binding]; other site 557600001876 active site 557600001877 motif 1; other site 557600001878 motif 2; other site 557600001879 motif 3; other site 557600001880 siroheme synthase; Provisional; Region: cysG; PRK10637 557600001881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600001882 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 557600001883 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 557600001884 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 557600001885 Helix-turn-helix domains; Region: HTH; cl00088 557600001886 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600001887 amino acid transporter; Region: 2A0306; TIGR00909 557600001888 Spore germination protein; Region: Spore_permease; cl15802 557600001889 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557600001890 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 557600001891 putative active site [active] 557600001892 metal binding site [ion binding]; metal-binding site 557600001893 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 557600001894 Protein of unknown function (DUF493); Region: DUF493; cl01102 557600001895 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 557600001896 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 557600001897 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 557600001898 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 557600001899 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557600001900 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 557600001901 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 557600001902 DNA binding residues [nucleotide binding] 557600001903 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 557600001904 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 557600001905 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 557600001906 active site residue [active] 557600001907 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 557600001908 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 557600001909 dimer interface [polypeptide binding]; other site 557600001910 Citrate synthase; Region: Citrate_synt; pfam00285 557600001911 active site 557600001912 citrylCoA binding site [chemical binding]; other site 557600001913 NADH binding [chemical binding]; other site 557600001914 cationic pore residues; other site 557600001915 oxalacetate/citrate binding site [chemical binding]; other site 557600001916 coenzyme A binding site [chemical binding]; other site 557600001917 catalytic triad [active] 557600001918 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 557600001919 Iron-sulfur protein interface; other site 557600001920 proximal quinone binding site [chemical binding]; other site 557600001921 SdhD (CybS) interface [polypeptide binding]; other site 557600001922 proximal heme binding site [chemical binding]; other site 557600001923 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 557600001924 SdhC subunit interface [polypeptide binding]; other site 557600001925 proximal heme binding site [chemical binding]; other site 557600001926 cardiolipin binding site; other site 557600001927 Iron-sulfur protein interface; other site 557600001928 proximal quinone binding site [chemical binding]; other site 557600001929 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 557600001930 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600001931 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557600001932 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 557600001933 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 557600001934 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 557600001935 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 557600001936 TPP-binding site [chemical binding]; other site 557600001937 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 557600001938 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 557600001939 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 557600001940 E3 interaction surface; other site 557600001941 lipoyl attachment site [posttranslational modification]; other site 557600001942 e3 binding domain; Region: E3_binding; pfam02817 557600001943 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 557600001944 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 557600001945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600001946 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600001947 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557600001948 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 557600001949 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600001950 CoA-ligase; Region: Ligase_CoA; cl02894 557600001951 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 557600001952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600001953 CoA-ligase; Region: Ligase_CoA; cl02894 557600001954 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 557600001955 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 557600001956 active site 557600001957 HIGH motif; other site 557600001958 dimer interface [polypeptide binding]; other site 557600001959 KMSKS motif; other site 557600001960 Protein of unknown function (DUF808); Region: DUF808; cl01002 557600001961 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 557600001962 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 557600001963 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 557600001964 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 557600001965 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 557600001966 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600001967 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600001968 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600001969 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600001970 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600001971 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600001972 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 557600001973 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 557600001974 putative active site [active] 557600001975 putative metal binding site [ion binding]; other site 557600001976 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 557600001977 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 557600001978 active site 557600001979 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 557600001980 DNA binding site [nucleotide binding] 557600001981 active site 557600001982 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 557600001983 Ligand Binding Site [chemical binding]; other site 557600001984 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 557600001985 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 557600001986 trimer interface [polypeptide binding]; other site 557600001987 active site 557600001988 substrate binding site [chemical binding]; other site 557600001989 CoA binding site [chemical binding]; other site 557600001990 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 557600001991 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557600001992 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557600001993 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 557600001994 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557600001995 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600001996 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 557600001997 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557600001998 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600001999 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 557600002000 IMP binding site; other site 557600002001 dimer interface [polypeptide binding]; other site 557600002002 interdomain contacts; other site 557600002003 partial ornithine binding site; other site 557600002004 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 557600002005 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 557600002006 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 557600002007 catalytic site [active] 557600002008 subunit interface [polypeptide binding]; other site 557600002009 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 557600002010 putative heme binding site [chemical binding]; other site 557600002011 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 557600002012 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 557600002013 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 557600002014 FtsH Extracellular; Region: FtsH_ext; pfam06480 557600002015 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 557600002016 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 557600002017 Walker A motif; other site 557600002018 ATP binding site [chemical binding]; other site 557600002019 Walker B motif; other site 557600002020 arginine finger; other site 557600002021 Peptidase family M41; Region: Peptidase_M41; pfam01434 557600002022 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 557600002023 dihydropteroate synthase; Region: DHPS; TIGR01496 557600002024 substrate binding pocket [chemical binding]; other site 557600002025 dimer interface [polypeptide binding]; other site 557600002026 inhibitor binding site; inhibition site 557600002027 PhoD-like phosphatase; Region: PhoD; pfam09423 557600002028 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 557600002029 putative active site [active] 557600002030 putative metal binding site [ion binding]; other site 557600002031 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 557600002032 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 557600002033 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 557600002034 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 557600002035 homodimer interface [polypeptide binding]; other site 557600002036 NADP binding site [chemical binding]; other site 557600002037 substrate binding site [chemical binding]; other site 557600002038 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 557600002039 S-adenosylmethionine binding site [chemical binding]; other site 557600002040 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 557600002041 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 557600002042 putative substrate translocation pore; other site 557600002043 glycerol kinase; Provisional; Region: glpK; PRK00047 557600002044 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 557600002045 N- and C-terminal domain interface [polypeptide binding]; other site 557600002046 active site 557600002047 MgATP binding site [chemical binding]; other site 557600002048 catalytic site [active] 557600002049 metal binding site [ion binding]; metal-binding site 557600002050 glycerol binding site [chemical binding]; other site 557600002051 homotetramer interface [polypeptide binding]; other site 557600002052 homodimer interface [polypeptide binding]; other site 557600002053 FBP binding site [chemical binding]; other site 557600002054 protein IIAGlc interface [polypeptide binding]; other site 557600002055 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 557600002056 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 557600002057 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_GTP; cd00819 557600002058 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 557600002059 active site 557600002060 substrate-binding site [chemical binding]; other site 557600002061 metal-binding site [ion binding] 557600002062 GTP binding site [chemical binding]; other site 557600002063 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 557600002064 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 557600002065 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557600002066 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 557600002067 putative active site [active] 557600002068 putative metal binding site [ion binding]; other site 557600002069 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 557600002070 active site 557600002071 metal binding site [ion binding]; metal-binding site 557600002072 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600002073 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 557600002074 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600002075 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 557600002076 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600002077 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600002078 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 557600002079 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 557600002080 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 557600002081 oligomerisation interface [polypeptide binding]; other site 557600002082 mobile loop; other site 557600002083 roof hairpin; other site 557600002084 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 557600002085 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 557600002086 ring oligomerisation interface [polypeptide binding]; other site 557600002087 ATP/Mg binding site [chemical binding]; other site 557600002088 stacking interactions; other site 557600002089 hinge regions; other site 557600002090 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 557600002091 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600002092 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 557600002093 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 557600002094 putative active site [active] 557600002095 catalytic site [active] 557600002096 putative metal binding site [ion binding]; other site 557600002097 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 557600002098 Protein export membrane protein; Region: SecD_SecF; cl14618 557600002099 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 557600002100 Peptidase family M48; Region: Peptidase_M48; cl12018 557600002101 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 557600002102 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557600002103 catalytic residue [active] 557600002104 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 557600002105 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 557600002106 Ligand Binding Site [chemical binding]; other site 557600002107 SCP-2 sterol transfer family; Region: SCP2; cl01225 557600002108 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 557600002109 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 557600002110 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 557600002111 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557600002112 catalytic residue [active] 557600002113 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 557600002114 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557600002115 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557600002116 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 557600002117 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 557600002118 AMP-binding enzyme; Region: AMP-binding; cl15778 557600002119 AMP-binding enzyme; Region: AMP-binding; cl15778 557600002120 Phosphopantetheine attachment site; Region: PP-binding; cl09936 557600002121 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 557600002122 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 557600002123 putative trimer interface [polypeptide binding]; other site 557600002124 putative CoA binding site [chemical binding]; other site 557600002125 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 557600002126 putative CoA binding site [chemical binding]; other site 557600002127 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 557600002128 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600002129 Helix-turn-helix domains; Region: HTH; cl00088 557600002130 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 557600002131 dimer interface [polypeptide binding]; other site 557600002132 FMN binding site [chemical binding]; other site 557600002133 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 557600002134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600002135 NAD(P) binding site [chemical binding]; other site 557600002136 active site 557600002137 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600002138 Helix-turn-helix domains; Region: HTH; cl00088 557600002139 Glycerate kinase family; Region: Gly_kinase; cl00841 557600002140 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 557600002141 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 557600002142 putative molybdopterin cofactor binding site [chemical binding]; other site 557600002143 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 557600002144 putative molybdopterin cofactor binding site; other site 557600002145 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 557600002146 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 557600002147 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 557600002148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600002149 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 557600002150 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 557600002151 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 557600002152 motif 1; other site 557600002153 dimer interface [polypeptide binding]; other site 557600002154 active site 557600002155 motif 2; other site 557600002156 motif 3; other site 557600002157 Tim44-like domain; Region: Tim44; cl09208 557600002158 DNA repair protein RadA; Provisional; Region: PRK11823 557600002159 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 557600002160 Walker A motif/ATP binding site; other site 557600002161 ATP binding site [chemical binding]; other site 557600002162 Walker B motif; other site 557600002163 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 557600002164 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 557600002165 diaminopimelate decarboxylase; Region: lysA; TIGR01048 557600002166 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 557600002167 active site 557600002168 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557600002169 substrate binding site [chemical binding]; other site 557600002170 catalytic residues [active] 557600002171 dimer interface [polypeptide binding]; other site 557600002172 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 557600002173 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 557600002174 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 557600002175 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600002176 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600002177 LysE type translocator; Region: LysE; cl00565 557600002178 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 557600002179 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 557600002180 active site 557600002181 DNA binding site [nucleotide binding] 557600002182 Int/Topo IB signature motif; other site 557600002183 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 557600002184 Ligand binding site [chemical binding]; other site 557600002185 Electron transfer flavoprotein domain; Region: ETF; pfam01012 557600002186 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 557600002187 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 557600002188 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 557600002189 DNA gyrase subunit A; Validated; Region: PRK05560 557600002190 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 557600002191 CAP-like domain; other site 557600002192 active site 557600002193 primary dimer interface [polypeptide binding]; other site 557600002194 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557600002195 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557600002196 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557600002197 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557600002198 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557600002199 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557600002200 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 557600002201 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 557600002202 GtrA-like protein; Region: GtrA; cl00971 557600002203 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 557600002204 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 557600002205 Ligand binding site; other site 557600002206 Putative Catalytic site; other site 557600002207 DXD motif; other site 557600002208 YdjC-like protein; Region: YdjC; cl01344 557600002209 ABC-2 type transporter; Region: ABC2_membrane; cl11417 557600002210 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 557600002211 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 557600002212 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 557600002213 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 557600002214 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 557600002215 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 557600002216 homodimer interface [polypeptide binding]; other site 557600002217 substrate-cofactor binding pocket; other site 557600002218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600002219 catalytic residue [active] 557600002220 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 557600002221 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 557600002222 EamA-like transporter family; Region: EamA; cl01037 557600002223 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 557600002224 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557600002225 FtsX-like permease family; Region: FtsX; cl15850 557600002226 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 557600002227 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 557600002228 Walker A/P-loop; other site 557600002229 ATP binding site [chemical binding]; other site 557600002230 Q-loop/lid; other site 557600002231 ABC transporter signature motif; other site 557600002232 Walker B; other site 557600002233 D-loop; other site 557600002234 H-loop/switch region; other site 557600002235 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 557600002236 Competence protein; Region: Competence; cl00471 557600002237 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600002238 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 557600002239 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 557600002240 tandem repeat interface [polypeptide binding]; other site 557600002241 oligomer interface [polypeptide binding]; other site 557600002242 active site residues [active] 557600002243 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600002244 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600002245 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 557600002246 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 557600002247 active site 557600002248 substrate binding site [chemical binding]; other site 557600002249 cosubstrate binding site; other site 557600002250 catalytic site [active] 557600002251 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 557600002252 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 557600002253 dimerization interface [polypeptide binding]; other site 557600002254 putative ATP binding site [chemical binding]; other site 557600002255 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 557600002256 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557600002257 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 557600002258 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600002259 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 557600002260 RNA polymerase factor sigma-70; Validated; Region: PRK09047 557600002261 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557600002262 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 557600002263 DNA binding residues [nucleotide binding] 557600002264 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 557600002265 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 557600002266 fructose-1,6-bisphosphatase family protein; Region: PLN02628 557600002267 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 557600002268 AMP binding site [chemical binding]; other site 557600002269 metal binding site [ion binding]; metal-binding site 557600002270 active site 557600002271 putative outer membrane lipoprotein; Provisional; Region: PRK09967 557600002272 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557600002273 ligand binding site [chemical binding]; other site 557600002274 translocation protein TolB; Provisional; Region: tolB; PRK04922 557600002275 TolB amino-terminal domain; Region: TolB_N; cl00639 557600002276 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; cl02567 557600002277 structural tetrad; other site 557600002278 Gram-negative bacterial tonB protein; Region: TonB; cl10048 557600002279 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 557600002280 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 557600002281 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 557600002282 active site 557600002283 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 557600002284 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 557600002285 metal binding site [ion binding]; metal-binding site 557600002286 putative dimer interface [polypeptide binding]; other site 557600002287 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 557600002288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600002289 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 557600002290 Walker A motif; other site 557600002291 ATP binding site [chemical binding]; other site 557600002292 Walker B motif; other site 557600002293 arginine finger; other site 557600002294 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 557600002295 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 557600002296 RuvA N terminal domain; Region: RuvA_N; pfam01330 557600002297 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 557600002298 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 557600002299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 557600002300 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 557600002301 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 557600002302 dimerization interface [polypeptide binding]; other site 557600002303 ATP binding site [chemical binding]; other site 557600002304 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 557600002305 dimerization interface [polypeptide binding]; other site 557600002306 ATP binding site [chemical binding]; other site 557600002307 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 557600002308 putative active site [active] 557600002309 catalytic triad [active] 557600002310 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 557600002311 putative substrate translocation pore; other site 557600002312 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 557600002313 enoyl-CoA hydratase; Provisional; Region: PRK06688 557600002314 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600002315 substrate binding site [chemical binding]; other site 557600002316 oxyanion hole (OAH) forming residues; other site 557600002317 trimer interface [polypeptide binding]; other site 557600002318 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557600002319 active site 557600002320 nucleotide binding site [chemical binding]; other site 557600002321 HIGH motif; other site 557600002322 KMSKS motif; other site 557600002323 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 557600002324 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 557600002325 catalytic triad [active] 557600002326 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_IV; cd01994 557600002327 Ligand Binding Site [chemical binding]; other site 557600002328 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 557600002329 Ligand Binding Site [chemical binding]; other site 557600002330 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 557600002331 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 557600002332 FeS/SAM binding site; other site 557600002333 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 557600002334 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 557600002335 active site 557600002336 substrate binding site [chemical binding]; other site 557600002337 trimer interface [polypeptide binding]; other site 557600002338 CoA binding site [chemical binding]; other site 557600002339 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 557600002340 Helix-turn-helix domains; Region: HTH; cl00088 557600002341 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 557600002342 substrate binding site [chemical binding]; other site 557600002343 dimerization interface [polypeptide binding]; other site 557600002344 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 557600002345 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 557600002346 Walker A/P-loop; other site 557600002347 ATP binding site [chemical binding]; other site 557600002348 Q-loop/lid; other site 557600002349 ABC transporter signature motif; other site 557600002350 Walker B; other site 557600002351 D-loop; other site 557600002352 H-loop/switch region; other site 557600002353 TOBE-like domain; Region: TOBE_3; pfam12857 557600002354 sulfate transport protein; Provisional; Region: cysT; CHL00187 557600002355 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 557600002356 dimer interface [polypeptide binding]; other site 557600002357 conserved gate region; other site 557600002358 putative PBP binding loops; other site 557600002359 ABC-ATPase subunit interface; other site 557600002360 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557600002361 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 557600002362 dimer interface [polypeptide binding]; other site 557600002363 conserved gate region; other site 557600002364 putative PBP binding loops; other site 557600002365 ABC-ATPase subunit interface; other site 557600002366 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600002367 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600002368 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557600002369 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 557600002370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600002371 catalytic residue [active] 557600002372 YceG-like family; Region: YceG; pfam02618 557600002373 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 557600002374 dimerization interface [polypeptide binding]; other site 557600002375 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 557600002376 thymidylate kinase; Validated; Region: tmk; PRK00698 557600002377 TMP-binding site; other site 557600002378 ATP-binding site [chemical binding]; other site 557600002379 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 557600002380 CoenzymeA binding site [chemical binding]; other site 557600002381 subunit interaction site [polypeptide binding]; other site 557600002382 PHB binding site; other site 557600002383 L-aspartate oxidase; Provisional; Region: PRK09077 557600002384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600002385 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557600002386 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 557600002387 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 557600002388 protein binding site [polypeptide binding]; other site 557600002389 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 557600002390 protein binding site [polypeptide binding]; other site 557600002391 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 557600002392 active site 557600002393 GTP-binding protein LepA; Provisional; Region: PRK05433 557600002394 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 557600002395 G1 box; other site 557600002396 putative GEF interaction site [polypeptide binding]; other site 557600002397 GTP/Mg2+ binding site [chemical binding]; other site 557600002398 Switch I region; other site 557600002399 G2 box; other site 557600002400 G3 box; other site 557600002401 Switch II region; other site 557600002402 G4 box; other site 557600002403 G5 box; other site 557600002404 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 557600002405 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 557600002406 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 557600002407 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 557600002408 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 557600002409 Catalytic site [active] 557600002410 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 557600002411 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 557600002412 metal binding site [ion binding]; metal-binding site 557600002413 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 557600002414 dsRNA binding site [nucleotide binding]; other site 557600002415 GTPase Era; Reviewed; Region: era; PRK00089 557600002416 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 557600002417 G1 box; other site 557600002418 GTP/Mg2+ binding site [chemical binding]; other site 557600002419 Switch I region; other site 557600002420 G2 box; other site 557600002421 Switch II region; other site 557600002422 G3 box; other site 557600002423 G4 box; other site 557600002424 G5 box; other site 557600002425 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 557600002426 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 557600002427 Recombination protein O N terminal; Region: RecO_N; cl15812 557600002428 Recombination protein O C terminal; Region: RecO_C; pfam02565 557600002429 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 557600002430 active site 557600002431 hydrophilic channel; other site 557600002432 dimerization interface [polypeptide binding]; other site 557600002433 catalytic residues [active] 557600002434 active site lid [active] 557600002435 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 557600002436 active site 557600002437 dinuclear metal binding site [ion binding]; other site 557600002438 dimerization interface [polypeptide binding]; other site 557600002439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600002440 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 557600002441 NAD(P) binding site [chemical binding]; other site 557600002442 active site 557600002443 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 557600002444 CoenzymeA binding site [chemical binding]; other site 557600002445 subunit interaction site [polypeptide binding]; other site 557600002446 PHB binding site; other site 557600002447 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 557600002448 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 557600002449 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 557600002450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600002451 homodimer interface [polypeptide binding]; other site 557600002452 catalytic residue [active] 557600002453 PAS domain; Region: PAS_9; pfam13426 557600002454 PAS domain; Region: PAS_9; pfam13426 557600002455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557600002456 metal binding site [ion binding]; metal-binding site 557600002457 active site 557600002458 I-site; other site 557600002459 hypothetical protein; Region: PHA00684 557600002460 excinuclease ABC subunit B; Provisional; Region: PRK05298 557600002461 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 557600002462 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 557600002463 ATP-binding site [chemical binding]; other site 557600002464 ATP binding site [chemical binding]; other site 557600002465 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 557600002466 nucleotide binding region [chemical binding]; other site 557600002467 ATP-binding site [chemical binding]; other site 557600002468 Ultra-violet resistance protein B; Region: UvrB; pfam12344 557600002469 UvrB/uvrC motif; Region: UVR; pfam02151 557600002470 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 557600002471 Predicted permeases [General function prediction only]; Region: RarD; COG2962 557600002472 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 557600002473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600002474 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 557600002475 GTPase CgtA; Reviewed; Region: obgE; PRK12298 557600002476 GTP1/OBG; Region: GTP1_OBG; pfam01018 557600002477 Obg GTPase; Region: Obg; cd01898 557600002478 G1 box; other site 557600002479 GTP/Mg2+ binding site [chemical binding]; other site 557600002480 Switch I region; other site 557600002481 G2 box; other site 557600002482 G3 box; other site 557600002483 Switch II region; other site 557600002484 G4 box; other site 557600002485 G5 box; other site 557600002486 gamma-glutamyl kinase; Provisional; Region: PRK05429 557600002487 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 557600002488 nucleotide binding site [chemical binding]; other site 557600002489 homotetrameric interface [polypeptide binding]; other site 557600002490 putative phosphate binding site [ion binding]; other site 557600002491 putative allosteric binding site; other site 557600002492 PUA domain; Region: PUA; cl00607 557600002493 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 557600002494 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 557600002495 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 557600002496 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 557600002497 FMN binding site [chemical binding]; other site 557600002498 active site 557600002499 catalytic residues [active] 557600002500 substrate binding site [chemical binding]; other site 557600002501 Nitronate monooxygenase; Region: NMO; pfam03060 557600002502 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 557600002503 FMN binding site [chemical binding]; other site 557600002504 substrate binding site [chemical binding]; other site 557600002505 putative catalytic residue [active] 557600002506 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 557600002507 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 557600002508 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 557600002509 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 557600002510 active site 557600002511 homodimer interface [polypeptide binding]; other site 557600002512 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 557600002513 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 557600002514 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 557600002515 DNA photolyase; Region: DNA_photolyase; pfam00875 557600002516 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 557600002517 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 557600002518 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 557600002519 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600002520 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 557600002521 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600002522 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 557600002523 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 557600002524 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 557600002525 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 557600002526 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 557600002527 pseudouridine synthase; Region: TIGR00093 557600002528 active site 557600002529 isocitrate dehydrogenase; Validated; Region: PRK06451 557600002530 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 557600002531 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 557600002532 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600002533 Helix-turn-helix domains; Region: HTH; cl00088 557600002534 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 557600002535 putative dimerization interface [polypeptide binding]; other site 557600002536 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 557600002537 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557600002538 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 557600002539 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 557600002540 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557600002541 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 557600002542 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557600002543 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557600002544 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557600002545 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 557600002546 Uncharacterized conserved protein [Function unknown]; Region: COG3025 557600002547 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 557600002548 putative active site [active] 557600002549 putative metal binding residues [ion binding]; other site 557600002550 signature motif; other site 557600002551 putative triphosphate binding site [ion binding]; other site 557600002552 CHAD domain; Region: CHAD; cl10506 557600002553 Protein of unknown function (DUF962); Region: DUF962; cl01879 557600002554 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 557600002555 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600002556 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 557600002557 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 557600002558 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 557600002559 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 557600002560 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 557600002561 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 557600002562 thiamine phosphate binding site [chemical binding]; other site 557600002563 active site 557600002564 pyrophosphate binding site [ion binding]; other site 557600002565 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 557600002566 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 557600002567 inhibitor-cofactor binding pocket; inhibition site 557600002568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600002569 catalytic residue [active] 557600002570 Phosphopantetheine attachment site; Region: PP-binding; cl09936 557600002571 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 557600002572 active site 557600002573 ATP-dependent helicase HepA; Validated; Region: PRK04914 557600002574 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 557600002575 ATP binding site [chemical binding]; other site 557600002576 putative Mg++ binding site [ion binding]; other site 557600002577 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 557600002578 nucleotide binding region [chemical binding]; other site 557600002579 ATP-binding site [chemical binding]; other site 557600002580 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557600002581 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 557600002582 Helix-turn-helix domains; Region: HTH; cl00088 557600002583 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 557600002584 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557600002585 FAD binding pocket [chemical binding]; other site 557600002586 FAD binding motif [chemical binding]; other site 557600002587 phosphate binding motif [ion binding]; other site 557600002588 beta-alpha-beta structure motif; other site 557600002589 NAD binding pocket [chemical binding]; other site 557600002590 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 557600002591 catalytic loop [active] 557600002592 iron binding site [ion binding]; other site 557600002593 Fatty acid desaturase; Region: FA_desaturase; pfam00487 557600002594 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 557600002595 putative di-iron ligands [ion binding]; other site 557600002596 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 557600002597 CoenzymeA binding site [chemical binding]; other site 557600002598 subunit interaction site [polypeptide binding]; other site 557600002599 PHB binding site; other site 557600002600 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600002601 Helix-turn-helix domains; Region: HTH; cl00088 557600002602 Protein of unknown function (DUF541); Region: SIMPL; cl01077 557600002603 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 557600002604 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 557600002605 inhibitor-cofactor binding pocket; inhibition site 557600002606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600002607 catalytic residue [active] 557600002608 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 557600002609 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 557600002610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600002611 catalytic residue [active] 557600002612 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600002613 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 557600002614 NAD(P) binding site [chemical binding]; other site 557600002615 catalytic residues [active] 557600002616 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557600002617 Helix-turn-helix domains; Region: HTH; cl00088 557600002618 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 557600002619 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 557600002620 dimer interface [polypeptide binding]; other site 557600002621 PYR/PP interface [polypeptide binding]; other site 557600002622 TPP binding site [chemical binding]; other site 557600002623 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 557600002624 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 557600002625 TPP-binding site [chemical binding]; other site 557600002626 dimer interface [polypeptide binding]; other site 557600002627 aromatic amino acid transporter; Provisional; Region: PRK10238 557600002628 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600002629 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 557600002630 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 557600002631 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 557600002632 dimer interface [polypeptide binding]; other site 557600002633 conserved gate region; other site 557600002634 putative PBP binding loops; other site 557600002635 ABC-ATPase subunit interface; other site 557600002636 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 557600002637 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 557600002638 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 557600002639 dimer interface [polypeptide binding]; other site 557600002640 conserved gate region; other site 557600002641 putative PBP binding loops; other site 557600002642 ABC-ATPase subunit interface; other site 557600002643 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 557600002644 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 557600002645 Walker A/P-loop; other site 557600002646 ATP binding site [chemical binding]; other site 557600002647 Q-loop/lid; other site 557600002648 ABC transporter signature motif; other site 557600002649 Walker B; other site 557600002650 D-loop; other site 557600002651 H-loop/switch region; other site 557600002652 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 557600002653 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 557600002654 tandem repeat interface [polypeptide binding]; other site 557600002655 oligomer interface [polypeptide binding]; other site 557600002656 active site residues [active] 557600002657 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600002658 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 557600002659 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 557600002660 adenylosuccinate lyase; Provisional; Region: PRK09285 557600002661 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 557600002662 tetramer interface [polypeptide binding]; other site 557600002663 active site 557600002664 Protein of unknown function (DUF489); Region: DUF489; cl01097 557600002665 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 557600002666 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 557600002667 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 557600002668 nudix motif; other site 557600002669 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 557600002670 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 557600002671 trimer interface [polypeptide binding]; other site 557600002672 putative metal binding site [ion binding]; other site 557600002673 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 557600002674 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600002675 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 557600002676 Survival protein SurE; Region: SurE; cl00448 557600002677 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 557600002678 putative peptidoglycan binding site; other site 557600002679 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 557600002680 transcriptional regulator; Provisional; Region: PRK10632 557600002681 Helix-turn-helix domains; Region: HTH; cl00088 557600002682 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557600002683 putative effector binding pocket; other site 557600002684 dimerization interface [polypeptide binding]; other site 557600002685 AAA domain; Region: AAA_32; pfam13654 557600002686 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 557600002687 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 557600002688 muropeptide transporter; Validated; Region: ampG; PRK11010 557600002689 AmpG-related permease; Region: 2A0125; TIGR00901 557600002690 muropeptide transporter; Validated; Region: ampG; PRK11010 557600002691 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557600002692 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 557600002693 dimer interface [polypeptide binding]; other site 557600002694 active site 557600002695 metal binding site [ion binding]; metal-binding site 557600002696 glutathione binding site [chemical binding]; other site 557600002697 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 557600002698 Membrane transport protein; Region: Mem_trans; cl09117 557600002699 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 557600002700 PAS domain S-box; Region: sensory_box; TIGR00229 557600002701 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 557600002702 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 557600002703 Radical SAM superfamily; Region: Radical_SAM; pfam04055 557600002704 elongation factor P; Validated; Region: PRK00529 557600002705 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 557600002706 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 557600002707 RNA binding site [nucleotide binding]; other site 557600002708 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 557600002709 RNA binding site [nucleotide binding]; other site 557600002710 carbon starvation protein A; Provisional; Region: PRK15015 557600002711 Carbon starvation protein CstA; Region: CstA; pfam02554 557600002712 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 557600002713 Protein of unknown function (DUF466); Region: DUF466; cl01082 557600002714 potential protein location (hypothetical protein ABBFA_001038 [Acinetobacter baumannii AB307-0294]) that overlaps RNA (tRNA-V) 557600002715 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 557600002716 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 557600002717 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 557600002718 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600002719 Helix-turn-helix domains; Region: HTH; cl00088 557600002720 Pirin-related protein [General function prediction only]; Region: COG1741 557600002721 Cupin domain; Region: Cupin_2; cl09118 557600002722 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 557600002723 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 557600002724 tetramer interface [polypeptide binding]; other site 557600002725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600002726 catalytic residue [active] 557600002727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 557600002728 YheO-like PAS domain; Region: PAS_6; pfam08348 557600002729 Helix-turn-helix domains; Region: HTH; cl00088 557600002730 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 557600002731 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 557600002732 FAD binding pocket [chemical binding]; other site 557600002733 FAD binding motif [chemical binding]; other site 557600002734 phosphate binding motif [ion binding]; other site 557600002735 NAD binding pocket [chemical binding]; other site 557600002736 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 557600002737 AMP-binding enzyme; Region: AMP-binding; cl15778 557600002738 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600002739 Phosphopantetheine attachment site; Region: PP-binding; cl09936 557600002740 peptide synthase; Validated; Region: PRK05691 557600002741 Condensation domain; Region: Condensation; pfam00668 557600002742 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 557600002743 ABC-ATPase subunit interface; other site 557600002744 dimer interface [polypeptide binding]; other site 557600002745 putative PBP binding regions; other site 557600002746 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 557600002747 ABC-ATPase subunit interface; other site 557600002748 dimer interface [polypeptide binding]; other site 557600002749 putative PBP binding regions; other site 557600002750 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 557600002751 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 557600002752 Walker A/P-loop; other site 557600002753 ATP binding site [chemical binding]; other site 557600002754 Q-loop/lid; other site 557600002755 ABC transporter signature motif; other site 557600002756 Walker B; other site 557600002757 D-loop; other site 557600002758 H-loop/switch region; other site 557600002759 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 557600002760 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 557600002761 putative ligand binding residues [chemical binding]; other site 557600002762 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557600002763 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600002764 N-terminal plug; other site 557600002765 ligand-binding site [chemical binding]; other site 557600002766 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 557600002767 Condensation domain; Region: Condensation; pfam00668 557600002768 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557600002769 Nonribosomal peptide synthase; Region: NRPS; pfam08415 557600002770 Condensation domain; Region: Condensation; pfam00668 557600002771 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 557600002772 Nonribosomal peptide synthase; Region: NRPS; pfam08415 557600002773 Phosphopantetheine attachment site; Region: PP-binding; cl09936 557600002774 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 557600002775 AMP-binding enzyme; Region: AMP-binding; cl15778 557600002776 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600002777 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 557600002778 hydrophobic substrate binding pocket; other site 557600002779 Isochorismatase family; Region: Isochorismatase; pfam00857 557600002780 active site 557600002781 conserved cis-peptide bond; other site 557600002782 Phosphopantetheine attachment site; Region: PP-binding; cl09936 557600002783 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 557600002784 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 557600002785 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557600002786 catalytic residue [active] 557600002787 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 557600002788 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600002789 Walker A/P-loop; other site 557600002790 ATP binding site [chemical binding]; other site 557600002791 Q-loop/lid; other site 557600002792 ABC transporter signature motif; other site 557600002793 Walker B; other site 557600002794 D-loop; other site 557600002795 H-loop/switch region; other site 557600002796 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 557600002797 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600002798 Walker A/P-loop; other site 557600002799 ATP binding site [chemical binding]; other site 557600002800 Q-loop/lid; other site 557600002801 ABC transporter signature motif; other site 557600002802 Walker B; other site 557600002803 D-loop; other site 557600002804 H-loop/switch region; other site 557600002805 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 557600002806 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 557600002807 chorismate binding enzyme; Region: Chorismate_bind; cl10555 557600002808 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 557600002809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 557600002810 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 557600002811 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 557600002812 substrate binding site [chemical binding]; other site 557600002813 active site 557600002814 Protein of unknown function (DUF817); Region: DUF817; cl01520 557600002815 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 557600002816 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 557600002817 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557600002818 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600002819 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 557600002820 homodecamer interface [polypeptide binding]; other site 557600002821 GTP cyclohydrolase I; Provisional; Region: PLN03044 557600002822 active site 557600002823 putative catalytic site residues [active] 557600002824 zinc binding site [ion binding]; other site 557600002825 GTP-CH-I/GFRP interaction surface; other site 557600002826 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 557600002827 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 557600002828 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 557600002829 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 557600002830 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 557600002831 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 557600002832 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 557600002833 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 557600002834 XdhC Rossmann domain; Region: XdhC_C; pfam13478 557600002835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 557600002836 Smr domain; Region: Smr; cl02619 557600002837 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 557600002838 active site 557600002839 product (indole) binding pocket [chemical binding]; other site 557600002840 substrate (anthranilate) binding pocket [chemical binding]; other site 557600002841 ribulose/triose binding site [chemical binding]; other site 557600002842 phosphate binding site [ion binding]; other site 557600002843 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 557600002844 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 557600002845 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 557600002846 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 557600002847 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557600002848 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 557600002849 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 557600002850 Peptidase family M1; Region: Peptidase_M1; pfam01433 557600002851 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 557600002852 Zn binding site [ion binding]; other site 557600002853 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 557600002854 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 557600002855 glutamine binding [chemical binding]; other site 557600002856 catalytic triad [active] 557600002857 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 557600002858 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 557600002859 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 557600002860 active site 557600002861 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 557600002862 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 557600002863 glutamine synthetase; Provisional; Region: glnA; PRK09469 557600002864 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 557600002865 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557600002866 UTRA domain; Region: UTRA; cl01230 557600002867 UbiA prenyltransferase family; Region: UbiA; cl00337 557600002868 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 557600002869 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 557600002870 putative active site [active] 557600002871 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 557600002872 superoxide dismutase; Provisional; Region: PRK10543 557600002873 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 557600002874 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 557600002875 Uncharacterized conserved protein [Function unknown]; Region: COG0327 557600002876 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 557600002877 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 557600002878 protein binding site [polypeptide binding]; other site 557600002879 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 557600002880 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 557600002881 active site 557600002882 NTP binding site [chemical binding]; other site 557600002883 metal binding triad [ion binding]; metal-binding site 557600002884 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 557600002885 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 557600002886 Malic enzyme, N-terminal domain; Region: malic; pfam00390 557600002887 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 557600002888 putative NAD(P) binding site [chemical binding]; other site 557600002889 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 557600002890 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 557600002891 PAS domain S-box; Region: sensory_box; TIGR00229 557600002892 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 557600002893 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557600002894 metal binding site [ion binding]; metal-binding site 557600002895 active site 557600002896 I-site; other site 557600002897 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 557600002898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 557600002899 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 557600002900 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 557600002901 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 557600002902 FAD binding site [chemical binding]; other site 557600002903 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 557600002904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600002905 oligomerization interface [polypeptide binding]; other site 557600002906 active site 557600002907 NAD+ binding site [chemical binding]; other site 557600002908 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 557600002909 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 557600002910 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 557600002911 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600002912 active site 557600002913 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 557600002914 lipoyl synthase; Provisional; Region: PRK05481 557600002915 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 557600002916 FeS/SAM binding site; other site 557600002917 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 557600002918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600002919 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600002920 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557600002921 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 557600002922 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600002923 putative substrate translocation pore; other site 557600002924 nitrate transmembrane transporter; Provisional; Region: PLN00028 557600002925 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 557600002926 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 557600002927 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 557600002928 active site 557600002929 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 557600002930 rRNA interaction site [nucleotide binding]; other site 557600002931 S8 interaction site; other site 557600002932 putative laminin-1 binding site; other site 557600002933 elongation factor Ts; Provisional; Region: tsf; PRK09377 557600002934 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 557600002935 Elongation factor TS; Region: EF_TS; pfam00889 557600002936 Elongation factor TS; Region: EF_TS; pfam00889 557600002937 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 557600002938 Cupin domain; Region: Cupin_2; cl09118 557600002939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600002940 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600002941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600002942 AzlC protein; Region: AzlC; cl00570 557600002943 Protein of unknown function (DUF962); Region: DUF962; cl01879 557600002944 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 557600002945 Transglycosylase SLT domain; Region: SLT_2; pfam13406 557600002946 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 557600002947 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557600002948 catalytic residue [active] 557600002949 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 557600002950 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 557600002951 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 557600002952 ABC-2 type transporter; Region: ABC2_membrane; cl11417 557600002953 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557600002954 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600002955 Walker A/P-loop; other site 557600002956 ATP binding site [chemical binding]; other site 557600002957 Q-loop/lid; other site 557600002958 ABC transporter signature motif; other site 557600002959 Walker B; other site 557600002960 D-loop; other site 557600002961 H-loop/switch region; other site 557600002962 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 557600002963 exodeoxyribonuclease X; Provisional; Region: PRK07983 557600002964 active site 557600002965 catalytic site [active] 557600002966 substrate binding site [chemical binding]; other site 557600002967 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 557600002968 Secretory lipase; Region: LIP; pfam03583 557600002969 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 557600002970 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 557600002971 dimer interface [polypeptide binding]; other site 557600002972 active site 557600002973 glycine-pyridoxal phosphate binding site [chemical binding]; other site 557600002974 folate binding site [chemical binding]; other site 557600002975 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557600002976 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 557600002977 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557600002978 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 557600002979 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 557600002980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600002981 Helix-turn-helix domains; Region: HTH; cl00088 557600002982 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 557600002983 putative effector binding pocket; other site 557600002984 putative dimerization interface [polypeptide binding]; other site 557600002985 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 557600002986 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 557600002987 substrate binding pocket [chemical binding]; other site 557600002988 membrane-bound complex binding site; other site 557600002989 hinge residues; other site 557600002990 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557600002991 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 557600002992 dimer interface [polypeptide binding]; other site 557600002993 conserved gate region; other site 557600002994 putative PBP binding loops; other site 557600002995 ABC-ATPase subunit interface; other site 557600002996 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557600002997 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 557600002998 dimer interface [polypeptide binding]; other site 557600002999 conserved gate region; other site 557600003000 putative PBP binding loops; other site 557600003001 ABC-ATPase subunit interface; other site 557600003002 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 557600003003 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 557600003004 Walker A/P-loop; other site 557600003005 ATP binding site [chemical binding]; other site 557600003006 Q-loop/lid; other site 557600003007 ABC transporter signature motif; other site 557600003008 Walker B; other site 557600003009 D-loop; other site 557600003010 H-loop/switch region; other site 557600003011 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 557600003012 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 557600003013 putative protease; Provisional; Region: PRK15452 557600003014 Peptidase family U32; Region: Peptidase_U32; cl03113 557600003015 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 557600003016 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600003017 DNA-binding site [nucleotide binding]; DNA binding site 557600003018 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 557600003019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600003020 homodimer interface [polypeptide binding]; other site 557600003021 catalytic residue [active] 557600003022 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 557600003023 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 557600003024 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557600003025 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 557600003026 FAD binding pocket [chemical binding]; other site 557600003027 FAD binding motif [chemical binding]; other site 557600003028 phosphate binding motif [ion binding]; other site 557600003029 beta-alpha-beta structure motif; other site 557600003030 NAD binding pocket [chemical binding]; other site 557600003031 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 557600003032 homodimer interaction site [polypeptide binding]; other site 557600003033 cofactor binding site; other site 557600003034 Predicted membrane protein [Function unknown]; Region: COG3174 557600003035 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 557600003036 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 557600003037 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 557600003038 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 557600003039 Walker A motif; other site 557600003040 ATP binding site [chemical binding]; other site 557600003041 Walker B motif; other site 557600003042 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 557600003043 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557600003044 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 557600003045 active site 557600003046 phosphorylation site [posttranslational modification] 557600003047 intermolecular recognition site; other site 557600003048 dimerization interface [polypeptide binding]; other site 557600003049 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 557600003050 DNA binding site [nucleotide binding] 557600003051 sensor protein QseC; Provisional; Region: PRK10337 557600003052 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 557600003053 dimer interface [polypeptide binding]; other site 557600003054 phosphorylation site [posttranslational modification] 557600003055 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 557600003056 ATP binding site [chemical binding]; other site 557600003057 Mg2+ binding site [ion binding]; other site 557600003058 G-X-G motif; other site 557600003059 Hemin uptake protein hemP; Region: hemP; cl10043 557600003060 hypothetical protein; Provisional; Region: PRK08999 557600003061 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 557600003062 active site 557600003063 8-oxo-dGMP binding site [chemical binding]; other site 557600003064 nudix motif; other site 557600003065 metal binding site [ion binding]; metal-binding site 557600003066 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 557600003067 active site 557600003068 pyrophosphate binding site [ion binding]; other site 557600003069 thiamine phosphate binding site [chemical binding]; other site 557600003070 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 557600003071 Transglycosylase; Region: Transgly; cl07896 557600003072 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600003073 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 557600003074 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 557600003075 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 557600003076 hypothetical protein; Validated; Region: PRK09071 557600003077 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 557600003078 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 557600003079 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 557600003080 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557600003081 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600003082 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600003083 active site 557600003084 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600003085 Chorismate mutase type II; Region: CM_2; cl00693 557600003086 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 557600003087 Prephenate dehydratase; Region: PDT; pfam00800 557600003088 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 557600003089 putative L-Phe binding site [chemical binding]; other site 557600003090 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 557600003091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003092 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 557600003093 hinge; other site 557600003094 active site 557600003095 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 557600003096 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 557600003097 metal binding site [ion binding]; metal-binding site 557600003098 dimer interface [polypeptide binding]; other site 557600003099 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600003100 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 557600003101 Protein of unknown function (DUF328); Region: DUF328; cl01143 557600003102 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 557600003103 ThiS interaction site; other site 557600003104 putative active site [active] 557600003105 tetramer interface [polypeptide binding]; other site 557600003106 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 557600003107 thiS-thiF/thiG interaction site; other site 557600003108 Protein of unknown function (DUF423); Region: DUF423; cl01008 557600003109 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 557600003110 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 557600003111 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557600003112 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 557600003113 DNA binding residues [nucleotide binding] 557600003114 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 557600003115 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 557600003116 DNA-binding site [nucleotide binding]; DNA binding site 557600003117 RNA-binding motif; other site 557600003118 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 557600003119 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557600003120 ATP binding site [chemical binding]; other site 557600003121 Mg++ binding site [ion binding]; other site 557600003122 motif III; other site 557600003123 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 557600003124 nucleotide binding region [chemical binding]; other site 557600003125 ATP-binding site [chemical binding]; other site 557600003126 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 557600003127 putative FMN binding site [chemical binding]; other site 557600003128 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 557600003129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003130 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 557600003131 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 557600003132 catalytic core [active] 557600003133 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 557600003134 GspL periplasmic domain; Region: GspL_C; cl14909 557600003135 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 557600003136 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 557600003137 quinone interaction residues [chemical binding]; other site 557600003138 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 557600003139 active site 557600003140 catalytic residues [active] 557600003141 FMN binding site [chemical binding]; other site 557600003142 substrate binding site [chemical binding]; other site 557600003143 Colicin V production protein; Region: Colicin_V; cl00567 557600003144 amidophosphoribosyltransferase; Provisional; Region: PRK09246 557600003145 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 557600003146 active site 557600003147 tetramer interface [polypeptide binding]; other site 557600003148 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557600003149 active site 557600003150 Peptidase family M48; Region: Peptidase_M48; cl12018 557600003151 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 557600003152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003153 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 557600003154 Peptidase family M48; Region: Peptidase_M48; cl12018 557600003155 GatB domain; Region: GatB_Yqey; cl11497 557600003156 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 557600003157 UGMP family protein; Validated; Region: PRK09604 557600003158 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 557600003159 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 557600003160 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 557600003161 Walker A motif; other site 557600003162 ATP binding site [chemical binding]; other site 557600003163 Walker B motif; other site 557600003164 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 557600003165 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 557600003166 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 557600003167 active site 557600003168 nucleophile elbow; other site 557600003169 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600003170 substrate binding site [chemical binding]; other site 557600003171 activation loop (A-loop); other site 557600003172 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600003173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600003174 Helix-turn-helix domains; Region: HTH; cl00088 557600003175 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 557600003176 dimerization interface [polypeptide binding]; other site 557600003177 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 557600003178 inhibitor-cofactor binding pocket; inhibition site 557600003179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600003180 catalytic residue [active] 557600003181 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 557600003182 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 557600003183 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600003184 tetrameric interface [polypeptide binding]; other site 557600003185 NAD binding site [chemical binding]; other site 557600003186 catalytic residues [active] 557600003187 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 557600003188 Spore germination protein; Region: Spore_permease; cl15802 557600003189 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 557600003190 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600003191 active site 557600003192 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 557600003193 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 557600003194 S-adenosylmethionine binding site [chemical binding]; other site 557600003195 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557600003196 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 557600003197 active site 557600003198 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 557600003199 Sensors of blue-light using FAD; Region: BLUF; cl04855 557600003200 LysE type translocator; Region: LysE; cl00565 557600003201 Cupin domain; Region: Cupin_2; cl09118 557600003202 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600003203 Helix-turn-helix domain; Region: HTH_18; pfam12833 557600003204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600003205 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 557600003206 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 557600003207 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 557600003208 Putative cyclase; Region: Cyclase; cl00814 557600003209 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 557600003210 Helix-turn-helix domains; Region: HTH; cl00088 557600003211 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 557600003212 dimerization interface [polypeptide binding]; other site 557600003213 substrate binding pocket [chemical binding]; other site 557600003214 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557600003215 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 557600003216 active site 557600003217 catalytic tetrad [active] 557600003218 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557600003219 classical (c) SDRs; Region: SDR_c; cd05233 557600003220 NAD(P) binding site [chemical binding]; other site 557600003221 active site 557600003222 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 557600003223 putative hydrophobic ligand binding site [chemical binding]; other site 557600003224 protein interface [polypeptide binding]; other site 557600003225 gate; other site 557600003226 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 557600003227 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 557600003228 Walker A motif; other site 557600003229 ATP binding site [chemical binding]; other site 557600003230 Walker B motif; other site 557600003231 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557600003232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600003233 DNA-binding site [nucleotide binding]; DNA binding site 557600003234 FCD domain; Region: FCD; cl11656 557600003235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600003236 Helix-turn-helix domains; Region: HTH; cl00088 557600003237 Spore Coat Protein U domain; Region: SCPU; cl02253 557600003238 Spore Coat Protein U domain; Region: SCPU; cl02253 557600003239 Spore Coat Protein U domain; Region: SCPU; cl02253 557600003240 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 557600003241 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557600003242 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 557600003243 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 557600003244 PapC C-terminal domain; Region: PapC_C; pfam13953 557600003245 Spore Coat Protein U domain; Region: SCPU; cl02253 557600003246 Spore Coat Protein U domain; Region: SCPU; cl02253 557600003247 proline/glycine betaine transporter; Provisional; Region: PRK10642 557600003248 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 557600003249 putative substrate translocation pore; other site 557600003250 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 557600003251 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600003252 Helix-turn-helix domains; Region: HTH; cl00088 557600003253 EamA-like transporter family; Region: EamA; cl01037 557600003254 EamA-like transporter family; Region: EamA; cl01037 557600003255 Paraquat-inducible protein A; Region: PqiA; pfam04403 557600003256 Paraquat-inducible protein A; Region: PqiA; pfam04403 557600003257 mce related protein; Region: MCE; pfam02470 557600003258 mce related protein; Region: MCE; pfam02470 557600003259 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 557600003260 mce related protein; Region: MCE; pfam02470 557600003261 Protein of unknown function (DUF330); Region: DUF330; cl01135 557600003262 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 557600003263 active site 557600003264 homotetramer interface [polypeptide binding]; other site 557600003265 Domain of unknown function (DUF336); Region: DUF336; cl01249 557600003266 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 557600003267 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 557600003268 active site 557600003269 phosphorylation site [posttranslational modification] 557600003270 intermolecular recognition site; other site 557600003271 dimerization interface [polypeptide binding]; other site 557600003272 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 557600003273 DNA binding site [nucleotide binding] 557600003274 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557600003275 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 557600003276 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 557600003277 dimer interface [polypeptide binding]; other site 557600003278 phosphorylation site [posttranslational modification] 557600003279 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 557600003280 ATP binding site [chemical binding]; other site 557600003281 Mg2+ binding site [ion binding]; other site 557600003282 G-X-G motif; other site 557600003283 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 557600003284 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 557600003285 Di-iron ligands [ion binding]; other site 557600003286 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 557600003287 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 557600003288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003289 Uncharacterized conserved protein [Function unknown]; Region: COG3496 557600003290 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 557600003291 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 557600003292 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 557600003293 S-adenosylmethionine binding site [chemical binding]; other site 557600003294 Phospholipid methyltransferase; Region: PEMT; cl00763 557600003295 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 557600003296 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 557600003297 S-adenosylmethionine binding site [chemical binding]; other site 557600003298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557600003299 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 557600003300 dimer interface [polypeptide binding]; other site 557600003301 phosphorylation site [posttranslational modification] 557600003302 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 557600003303 ATP binding site [chemical binding]; other site 557600003304 Mg2+ binding site [ion binding]; other site 557600003305 G-X-G motif; other site 557600003306 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557600003307 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 557600003308 active site 557600003309 phosphorylation site [posttranslational modification] 557600003310 intermolecular recognition site; other site 557600003311 dimerization interface [polypeptide binding]; other site 557600003312 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 557600003313 DNA binding site [nucleotide binding] 557600003314 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 557600003315 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557600003316 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600003317 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 557600003318 aspartate racemase; Region: asp_race; TIGR00035 557600003319 aromatic amino acid exporter; Provisional; Region: PRK11689 557600003320 EamA-like transporter family; Region: EamA; cl01037 557600003321 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 557600003322 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600003323 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 557600003324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600003325 Helix-turn-helix domains; Region: HTH; cl00088 557600003326 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 557600003327 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557600003328 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 557600003329 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600003330 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 557600003331 dimer interface [polypeptide binding]; other site 557600003332 conserved gate region; other site 557600003333 ABC-ATPase subunit interface; other site 557600003334 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 557600003335 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 557600003336 Walker A/P-loop; other site 557600003337 ATP binding site [chemical binding]; other site 557600003338 Q-loop/lid; other site 557600003339 ABC transporter signature motif; other site 557600003340 Walker B; other site 557600003341 D-loop; other site 557600003342 H-loop/switch region; other site 557600003343 NIL domain; Region: NIL; cl09633 557600003344 NMT1-like family; Region: NMT1_2; cl15260 557600003345 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 557600003346 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 557600003347 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600003348 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 557600003349 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 557600003350 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 557600003351 purine monophosphate binding site [chemical binding]; other site 557600003352 dimer interface [polypeptide binding]; other site 557600003353 putative catalytic residues [active] 557600003354 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 557600003355 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 557600003356 Helix-turn-helix domains; Region: HTH; cl00088 557600003357 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 557600003358 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 557600003359 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 557600003360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003361 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 557600003362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003363 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 557600003364 Predicted transcriptional regulator [Transcription]; Region: COG2378 557600003365 WYL domain; Region: WYL; cl14852 557600003366 Uncharacterized conserved protein [Function unknown]; Region: COG2308 557600003367 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 557600003368 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 557600003369 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 557600003370 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 557600003371 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 557600003372 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 557600003373 alanine racemase; Reviewed; Region: alr; PRK00053 557600003374 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 557600003375 active site 557600003376 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557600003377 substrate binding site [chemical binding]; other site 557600003378 catalytic residues [active] 557600003379 dimer interface [polypeptide binding]; other site 557600003380 replicative DNA helicase; Region: DnaB; TIGR00665 557600003381 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 557600003382 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 557600003383 Walker A motif; other site 557600003384 ATP binding site [chemical binding]; other site 557600003385 Walker B motif; other site 557600003386 DNA binding loops [nucleotide binding] 557600003387 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 557600003388 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 557600003389 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 557600003390 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 557600003391 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 557600003392 UbiA prenyltransferase family; Region: UbiA; cl00337 557600003393 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 557600003394 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 557600003395 Subunit I/III interface [polypeptide binding]; other site 557600003396 Subunit III/IV interface [polypeptide binding]; other site 557600003397 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 557600003398 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 557600003399 D-pathway; other site 557600003400 Putative ubiquinol binding site [chemical binding]; other site 557600003401 Low-spin heme (heme b) binding site [chemical binding]; other site 557600003402 Putative water exit pathway; other site 557600003403 Binuclear center (heme o3/CuB) [ion binding]; other site 557600003404 K-pathway; other site 557600003405 Putative proton exit pathway; other site 557600003406 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 557600003407 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 557600003408 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 557600003409 RDD family; Region: RDD; cl00746 557600003410 phosphoenolpyruvate synthase; Validated; Region: PRK06464 557600003411 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 557600003412 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 557600003413 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 557600003414 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 557600003415 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 557600003416 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 557600003417 binding surface 557600003418 TPR motif; other site 557600003419 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 557600003420 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 557600003421 putative active site [active] 557600003422 putative metal binding site [ion binding]; other site 557600003423 N-glycosyltransferase; Provisional; Region: PRK11204 557600003424 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 557600003425 DXD motif; other site 557600003426 PgaD-like protein; Region: PgaD; cl14676 557600003427 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557600003428 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 557600003429 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 557600003430 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600003431 Helix-turn-helix domains; Region: HTH; cl00088 557600003432 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557600003433 putative effector binding pocket; other site 557600003434 dimerization interface [polypeptide binding]; other site 557600003435 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 557600003436 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 557600003437 potential catalytic triad [active] 557600003438 conserved cys residue [active] 557600003439 peptide chain release factor 1; Validated; Region: prfA; PRK00591 557600003440 RF-1 domain; Region: RF-1; cl02875 557600003441 RF-1 domain; Region: RF-1; cl02875 557600003442 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 557600003443 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 557600003444 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557600003445 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 557600003446 ABC-ATPase subunit interface; other site 557600003447 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557600003448 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 557600003449 substrate binding pocket [chemical binding]; other site 557600003450 membrane-bound complex binding site; other site 557600003451 hinge residues; other site 557600003452 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600003453 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600003454 SurA N-terminal domain; Region: SurA_N_3; cl07813 557600003455 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600003456 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557600003457 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 557600003458 NAD binding site [chemical binding]; other site 557600003459 homodimer interface [polypeptide binding]; other site 557600003460 homotetramer interface [polypeptide binding]; other site 557600003461 active site 557600003462 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600003463 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600003464 active site 557600003465 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 557600003466 AMP-binding enzyme; Region: AMP-binding; cl15778 557600003467 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600003468 Flavin Reductases; Region: FlaRed; cl00801 557600003469 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 557600003470 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 557600003471 ATP binding site [chemical binding]; other site 557600003472 substrate interface [chemical binding]; other site 557600003473 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600003474 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 557600003475 homooctamer interface [polypeptide binding]; other site 557600003476 active site 557600003477 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; cl00233 557600003478 catalytic center binding site [active] 557600003479 ATP binding site [chemical binding]; other site 557600003480 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 557600003481 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 557600003482 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 557600003483 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557600003484 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 557600003485 K+-transporting ATPase, c chain; Region: KdpC; cl00944 557600003486 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 557600003487 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 557600003488 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 557600003489 Ligand Binding Site [chemical binding]; other site 557600003490 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 557600003491 dimer interface [polypeptide binding]; other site 557600003492 phosphorylation site [posttranslational modification] 557600003493 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 557600003494 ATP binding site [chemical binding]; other site 557600003495 Mg2+ binding site [ion binding]; other site 557600003496 G-X-G motif; other site 557600003497 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 557600003498 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 557600003499 active site 557600003500 phosphorylation site [posttranslational modification] 557600003501 intermolecular recognition site; other site 557600003502 dimerization interface [polypeptide binding]; other site 557600003503 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 557600003504 DNA binding site [nucleotide binding] 557600003505 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 557600003506 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557600003507 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557600003508 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 557600003509 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 557600003510 diiron binding motif [ion binding]; other site 557600003511 lysophospholipid transporter LplT; Provisional; Region: PRK11195 557600003512 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 557600003513 putative substrate translocation pore; other site 557600003514 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 557600003515 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 557600003516 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 557600003517 Surface antigen; Region: Bac_surface_Ag; cl03097 557600003518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 557600003519 Family of unknown function (DUF490); Region: DUF490; pfam04357 557600003520 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 557600003521 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 557600003522 substrate binding site [chemical binding]; other site 557600003523 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 557600003524 substrate binding site [chemical binding]; other site 557600003525 ligand binding site [chemical binding]; other site 557600003526 Ion transport protein; Region: Ion_trans; pfam00520 557600003527 Ion channel; Region: Ion_trans_2; cl11596 557600003528 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 557600003529 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600003530 putative substrate translocation pore; other site 557600003531 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 557600003532 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600003533 Helix-turn-helix domains; Region: HTH; cl00088 557600003534 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 557600003535 putative dimerization interface [polypeptide binding]; other site 557600003536 Protein of unknown function (DUF441); Region: DUF441; cl01041 557600003537 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 557600003538 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 557600003539 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 557600003540 active site 557600003541 uracil binding [chemical binding]; other site 557600003542 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557600003543 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600003544 Coenzyme A binding pocket [chemical binding]; other site 557600003545 RelB antitoxin; Region: RelB; cl01171 557600003546 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557600003547 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSRA_1; cd02558 557600003548 probable active site [active] 557600003549 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 557600003550 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 557600003551 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 557600003552 ATP binding site [chemical binding]; other site 557600003553 Mg2+ binding site [ion binding]; other site 557600003554 G-X-G motif; other site 557600003555 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 557600003556 ATP binding site [chemical binding]; other site 557600003557 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 557600003558 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 557600003559 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600003560 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 557600003561 Sm1 motif; other site 557600003562 intra - hexamer interaction site; other site 557600003563 inter - hexamer interaction site [polypeptide binding]; other site 557600003564 nucleotide binding pocket [chemical binding]; other site 557600003565 Sm2 motif; other site 557600003566 EamA-like transporter family; Region: EamA; cl01037 557600003567 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 557600003568 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 557600003569 dimer interface [polypeptide binding]; other site 557600003570 FMN binding site [chemical binding]; other site 557600003571 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 557600003572 putative active site [active] 557600003573 putative metal binding site [ion binding]; other site 557600003574 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 557600003575 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 557600003576 substrate binding site [chemical binding]; other site 557600003577 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 557600003578 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557600003579 active site 557600003580 HIGH motif; other site 557600003581 nucleotide binding site [chemical binding]; other site 557600003582 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 557600003583 KMSKS motif; other site 557600003584 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 557600003585 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 557600003586 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 557600003587 catalytic triad [active] 557600003588 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 557600003589 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 557600003590 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 557600003591 ethanolamine permease; Region: 2A0305; TIGR00908 557600003592 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 557600003593 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600003594 NAD(P) binding site [chemical binding]; other site 557600003595 catalytic residues [active] 557600003596 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 557600003597 Helix-turn-helix domains; Region: HTH; cl00088 557600003598 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 557600003599 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600003600 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 557600003601 putative alcohol dehydrogenase; Provisional; Region: PRK09860 557600003602 dimer interface [polypeptide binding]; other site 557600003603 active site 557600003604 metal binding site [ion binding]; metal-binding site 557600003605 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 557600003606 PIF1-like helicase; Region: PIF1; pfam05970 557600003607 Walker A motif; other site 557600003608 ATP binding site [chemical binding]; other site 557600003609 Walker B motif; other site 557600003610 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 557600003611 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 557600003612 putative substrate binding pocket [chemical binding]; other site 557600003613 trimer interface [polypeptide binding]; other site 557600003614 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 557600003615 substrate binding site [chemical binding]; other site 557600003616 multimerization interface [polypeptide binding]; other site 557600003617 ATP binding site [chemical binding]; other site 557600003618 aminopeptidase N; Provisional; Region: pepN; PRK14015 557600003619 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 557600003620 active site 557600003621 Zn binding site [ion binding]; other site 557600003622 Spore Coat Protein U domain; Region: SCPU; cl02253 557600003623 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557600003624 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 557600003625 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 557600003626 PapC C-terminal domain; Region: PapC_C; pfam13953 557600003627 Spore Coat Protein U domain; Region: SCPU; cl02253 557600003628 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557600003629 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 557600003630 C-terminal domain interface [polypeptide binding]; other site 557600003631 GSH binding site (G-site) [chemical binding]; other site 557600003632 dimer interface [polypeptide binding]; other site 557600003633 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 557600003634 N-terminal domain interface [polypeptide binding]; other site 557600003635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003636 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 557600003637 NAD(P) binding site [chemical binding]; other site 557600003638 active site 557600003639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003640 active site 557600003641 Chorismate mutase type II; Region: CM_2; cl00693 557600003642 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 557600003643 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 557600003644 putative DNA binding site [nucleotide binding]; other site 557600003645 putative Zn2+ binding site [ion binding]; other site 557600003646 Helix-turn-helix domains; Region: HTH; cl00088 557600003647 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600003648 Helix-turn-helix domains; Region: HTH; cl00088 557600003649 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 557600003650 outer membrane receptor FepA; Provisional; Region: PRK13524 557600003651 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 557600003652 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 557600003653 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557600003654 synaptic vesicle protein SV2; Region: synapt_SV2; TIGR01299 557600003655 Predicted acetyltransferase [General function prediction only]; Region: COG3153 557600003656 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600003657 Coenzyme A binding pocket [chemical binding]; other site 557600003658 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 557600003659 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600003660 N-terminal plug; other site 557600003661 ligand-binding site [chemical binding]; other site 557600003662 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 557600003663 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 557600003664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600003665 Walker A/P-loop; other site 557600003666 ATP binding site [chemical binding]; other site 557600003667 Q-loop/lid; other site 557600003668 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 557600003669 ABC transporter signature motif; other site 557600003670 Walker B; other site 557600003671 D-loop; other site 557600003672 ABC transporter; Region: ABC_tran_2; pfam12848 557600003673 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 557600003674 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 557600003675 Ligand Binding Site [chemical binding]; other site 557600003676 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 557600003677 RDD family; Region: RDD; cl00746 557600003678 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 557600003679 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 557600003680 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557600003681 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 557600003682 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 557600003683 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 557600003684 MgtC family; Region: MgtC; pfam02308 557600003685 Benzoate membrane transport protein; Region: BenE; pfam03594 557600003686 benzoate transporter; Region: benE; TIGR00843 557600003687 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 557600003688 Helix-turn-helix domains; Region: HTH; cl00088 557600003689 LysE type translocator; Region: LysE; cl00565 557600003690 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 557600003691 transaldolase-like protein; Provisional; Region: PTZ00411 557600003692 active site 557600003693 dimer interface [polypeptide binding]; other site 557600003694 catalytic residue [active] 557600003695 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600003696 Helix-turn-helix domains; Region: HTH; cl00088 557600003697 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 557600003698 dimerization interface [polypeptide binding]; other site 557600003699 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 557600003700 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 557600003701 dimer interface [polypeptide binding]; other site 557600003702 active site 557600003703 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 557600003704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003705 NAD(P) binding site [chemical binding]; other site 557600003706 active site 557600003707 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 557600003708 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 557600003709 active site 2 [active] 557600003710 active site 1 [active] 557600003711 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600003712 TetR family transcriptional regulator; Provisional; Region: PRK14996 557600003713 Helix-turn-helix domains; Region: HTH; cl00088 557600003714 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 557600003715 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 557600003716 putative substrate translocation pore; other site 557600003717 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 557600003718 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 557600003719 Walker A motif; other site 557600003720 ATP binding site [chemical binding]; other site 557600003721 Walker B motif; other site 557600003722 arginine finger; other site 557600003723 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 557600003724 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 557600003725 Phosphoesterase family; Region: Phosphoesterase; cl15450 557600003726 Domain of unknown function (DUF756); Region: DUF756; pfam05506 557600003727 Domain of unknown function (DUF756); Region: DUF756; pfam05506 557600003728 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 557600003729 active site 557600003730 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557600003731 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 557600003732 putative active site [active] 557600003733 metal binding site [ion binding]; metal-binding site 557600003734 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 557600003735 Low molecular weight phosphatase family; Region: LMWPc; cd00115 557600003736 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 557600003737 active site 557600003738 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 557600003739 FAD binding domain; Region: FAD_binding_4; pfam01565 557600003740 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 557600003741 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 557600003742 putative active site [active] 557600003743 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 557600003744 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600003745 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 557600003746 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 557600003747 active site 557600003748 FMN binding site [chemical binding]; other site 557600003749 substrate binding site [chemical binding]; other site 557600003750 3Fe-4S cluster binding site [ion binding]; other site 557600003751 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557600003752 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 557600003753 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600003754 Helix-turn-helix domains; Region: HTH; cl00088 557600003755 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 557600003756 MFS_1 like family; Region: MFS_1_like; pfam12832 557600003757 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 557600003758 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 557600003759 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557600003760 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600003761 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 557600003762 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 557600003763 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 557600003764 carboxyltransferase (CT) interaction site; other site 557600003765 biotinylation site [posttranslational modification]; other site 557600003766 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 557600003767 trimer interface [polypeptide binding]; other site 557600003768 active site 557600003769 dimer interface [polypeptide binding]; other site 557600003770 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 557600003771 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 557600003772 active site 557600003773 DNA binding site [nucleotide binding] 557600003774 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 557600003775 NMT1-like family; Region: NMT1_2; cl15260 557600003776 nitrite reductase subunit NirD; Provisional; Region: PRK14989 557600003777 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600003778 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 557600003779 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 557600003780 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 557600003781 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600003782 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 557600003783 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 557600003784 [4Fe-4S] binding site [ion binding]; other site 557600003785 molybdopterin cofactor binding site; other site 557600003786 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 557600003787 molybdopterin cofactor binding site; other site 557600003788 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 557600003789 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 557600003790 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 557600003791 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 557600003792 GTP binding site; other site 557600003793 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 557600003794 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 557600003795 molybdopterin cofactor binding site; other site 557600003796 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 557600003797 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 557600003798 putative molybdopterin cofactor binding site; other site 557600003799 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 557600003800 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 557600003801 FeS/SAM binding site; other site 557600003802 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 557600003803 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 557600003804 MoaE homodimer interface [polypeptide binding]; other site 557600003805 MoaD interaction [polypeptide binding]; other site 557600003806 active site residues [active] 557600003807 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 557600003808 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 557600003809 trimer interface [polypeptide binding]; other site 557600003810 dimer interface [polypeptide binding]; other site 557600003811 putative active site [active] 557600003812 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 557600003813 MPT binding site; other site 557600003814 trimer interface [polypeptide binding]; other site 557600003815 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 557600003816 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 557600003817 dimer interface [polypeptide binding]; other site 557600003818 putative functional site; other site 557600003819 putative MPT binding site; other site 557600003820 Helix-turn-helix domains; Region: HTH; cl00088 557600003821 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 557600003822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600003823 DNA-binding site [nucleotide binding]; DNA binding site 557600003824 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 557600003825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600003826 homodimer interface [polypeptide binding]; other site 557600003827 catalytic residue [active] 557600003828 EamA-like transporter family; Region: EamA; cl01037 557600003829 EamA-like transporter family; Region: EamA; cl01037 557600003830 DsrC like protein; Region: DsrC; cl01101 557600003831 DsrE/DsrF-like family; Region: DrsE; cl00672 557600003832 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 557600003833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003834 NAD(P) binding site [chemical binding]; other site 557600003835 active site 557600003836 fumarate hydratase; Reviewed; Region: fumC; PRK00485 557600003837 Class II fumarases; Region: Fumarase_classII; cd01362 557600003838 active site 557600003839 tetramer interface [polypeptide binding]; other site 557600003840 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 557600003841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003842 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 557600003843 homotrimer interaction site [polypeptide binding]; other site 557600003844 zinc binding site [ion binding]; other site 557600003845 CDP-binding sites; other site 557600003846 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 557600003847 ornithine carbamoyltransferase; Provisional; Region: PRK00779 557600003848 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557600003849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600003850 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600003851 Helix-turn-helix domains; Region: HTH; cl00088 557600003852 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 557600003853 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 557600003854 active site 557600003855 phosphorylation site [posttranslational modification] 557600003856 intermolecular recognition site; other site 557600003857 dimerization interface [polypeptide binding]; other site 557600003858 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 557600003859 Walker A motif; other site 557600003860 ATP binding site [chemical binding]; other site 557600003861 Walker B motif; other site 557600003862 arginine finger; other site 557600003863 Helix-turn-helix domains; Region: HTH; cl00088 557600003864 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 557600003865 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 557600003866 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 557600003867 dimer interface [polypeptide binding]; other site 557600003868 phosphorylation site [posttranslational modification] 557600003869 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 557600003870 ATP binding site [chemical binding]; other site 557600003871 Mg2+ binding site [ion binding]; other site 557600003872 G-X-G motif; other site 557600003873 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 557600003874 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 557600003875 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 557600003876 FeS/SAM binding site; other site 557600003877 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 557600003878 putative nucleotide binding site [chemical binding]; other site 557600003879 uridine monophosphate binding site [chemical binding]; other site 557600003880 homohexameric interface [polypeptide binding]; other site 557600003881 ribosome recycling factor; Reviewed; Region: frr; PRK00083 557600003882 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 557600003883 hinge region; other site 557600003884 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 557600003885 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 557600003886 catalytic residue [active] 557600003887 putative FPP diphosphate binding site; other site 557600003888 putative FPP binding hydrophobic cleft; other site 557600003889 dimer interface [polypeptide binding]; other site 557600003890 putative IPP diphosphate binding site; other site 557600003891 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 557600003892 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 557600003893 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 557600003894 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 557600003895 zinc metallopeptidase RseP; Provisional; Region: PRK10779 557600003896 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 557600003897 active site 557600003898 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 557600003899 protein binding site [polypeptide binding]; other site 557600003900 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 557600003901 protein binding site [polypeptide binding]; other site 557600003902 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 557600003903 putative substrate binding region [chemical binding]; other site 557600003904 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 557600003905 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 557600003906 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 557600003907 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 557600003908 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 557600003909 Surface antigen; Region: Bac_surface_Ag; cl03097 557600003910 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 557600003911 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 557600003912 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 557600003913 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 557600003914 trimer interface [polypeptide binding]; other site 557600003915 active site 557600003916 UDP-GlcNAc binding site [chemical binding]; other site 557600003917 lipid binding site [chemical binding]; lipid-binding site 557600003918 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 557600003919 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 557600003920 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 557600003921 active site 557600003922 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 557600003923 RecX family; Region: RecX; cl00936 557600003924 recombinase A; Provisional; Region: recA; PRK09354 557600003925 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 557600003926 hexamer interface [polypeptide binding]; other site 557600003927 Walker A motif; other site 557600003928 ATP binding site [chemical binding]; other site 557600003929 Walker B motif; other site 557600003930 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 557600003931 RNA binding surface [nucleotide binding]; other site 557600003932 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 557600003933 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 557600003934 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 557600003935 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 557600003936 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557600003937 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600003938 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 557600003939 putative DNA binding site [nucleotide binding]; other site 557600003940 putative Zn2+ binding site [ion binding]; other site 557600003941 Helix-turn-helix domains; Region: HTH; cl00088 557600003942 kynureninase; Region: kynureninase; TIGR01814 557600003943 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 557600003944 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557600003945 catalytic residue [active] 557600003946 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557600003947 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 557600003948 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 557600003949 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 557600003950 calcium binding site 2 [ion binding]; other site 557600003951 active site 557600003952 catalytic triad [active] 557600003953 calcium binding site 1 [ion binding]; other site 557600003954 Sulfate transporter family; Region: Sulfate_transp; cl15842 557600003955 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 557600003956 Sulfate transporter family; Region: Sulfate_transp; cl15842 557600003957 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 557600003958 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 557600003959 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 557600003960 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 557600003961 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 557600003962 Ligand Binding Site [chemical binding]; other site 557600003963 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 557600003964 PAS domain; Region: PAS_9; pfam13426 557600003965 putative active site [active] 557600003966 heme pocket [chemical binding]; other site 557600003967 PAS fold; Region: PAS_4; pfam08448 557600003968 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 557600003969 putative active site [active] 557600003970 heme pocket [chemical binding]; other site 557600003971 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557600003972 metal binding site [ion binding]; metal-binding site 557600003973 active site 557600003974 I-site; other site 557600003975 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 557600003976 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557600003977 Helix-turn-helix domains; Region: HTH; cl00088 557600003978 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 557600003979 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 557600003980 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 557600003981 active site 557600003982 P-loop; other site 557600003983 phosphorylation site [posttranslational modification] 557600003984 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 557600003985 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 557600003986 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 557600003987 putative substrate binding site [chemical binding]; other site 557600003988 putative ATP binding site [chemical binding]; other site 557600003989 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 557600003990 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 557600003991 active site 557600003992 phosphorylation site [posttranslational modification] 557600003993 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 557600003994 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 557600003995 dimerization domain swap beta strand [polypeptide binding]; other site 557600003996 regulatory protein interface [polypeptide binding]; other site 557600003997 active site 557600003998 regulatory phosphorylation site [posttranslational modification]; other site 557600003999 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557600004000 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 557600004001 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 557600004002 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 557600004003 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 557600004004 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600004005 Domain of unknown function (DUF336); Region: DUF336; cl01249 557600004006 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 557600004007 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 557600004008 active site 557600004009 LysR family transcriptional regulator; Provisional; Region: PRK14997 557600004010 Helix-turn-helix domains; Region: HTH; cl00088 557600004011 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 557600004012 putative effector binding pocket; other site 557600004013 putative dimerization interface [polypeptide binding]; other site 557600004014 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 557600004015 putative GSH binding site [chemical binding]; other site 557600004016 catalytic residues [active] 557600004017 acetylornithine aminotransferase; Provisional; Region: PRK02627 557600004018 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 557600004019 inhibitor-cofactor binding pocket; inhibition site 557600004020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600004021 catalytic residue [active] 557600004022 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_10; cd04623 557600004023 FOG: CBS domain [General function prediction only]; Region: COG0517 557600004024 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 557600004025 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 557600004026 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 557600004027 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 557600004028 P loop; other site 557600004029 GTP binding site [chemical binding]; other site 557600004030 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 557600004031 dimer interface [polypeptide binding]; other site 557600004032 FMN binding site [chemical binding]; other site 557600004033 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 557600004034 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 557600004035 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 557600004036 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 557600004037 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 557600004038 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 557600004039 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 557600004040 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 557600004041 iron-sulfur cluster [ion binding]; other site 557600004042 [2Fe-2S] cluster binding site [ion binding]; other site 557600004043 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557600004044 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 557600004045 substrate binding site [chemical binding]; other site 557600004046 ATP binding site [chemical binding]; other site 557600004047 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557600004048 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600004049 N-terminal plug; other site 557600004050 ligand-binding site [chemical binding]; other site 557600004051 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 557600004052 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 557600004053 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557600004054 Peptidase M16C associated; Region: M16C_assoc; pfam08367 557600004055 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557600004056 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 557600004057 dimerization interface [polypeptide binding]; other site 557600004058 substrate binding site [chemical binding]; other site 557600004059 active site 557600004060 calcium binding site [ion binding]; other site 557600004061 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 557600004062 Cation transport protein; Region: TrkH; cl10514 557600004063 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 557600004064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004065 threonine dehydratase; Reviewed; Region: PRK09224 557600004066 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 557600004067 tetramer interface [polypeptide binding]; other site 557600004068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600004069 catalytic residue [active] 557600004070 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 557600004071 putative Ile/Val binding site [chemical binding]; other site 557600004072 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 557600004073 putative Ile/Val binding site [chemical binding]; other site 557600004074 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 557600004075 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557600004076 active site 557600004077 dimer interface [polypeptide binding]; other site 557600004078 Protein of unknown function DUF45; Region: DUF45; cl00636 557600004079 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 557600004080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004081 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 557600004082 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 557600004083 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 557600004084 Clp amino terminal domain; Region: Clp_N; pfam02861 557600004085 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 557600004086 Walker A motif; other site 557600004087 ATP binding site [chemical binding]; other site 557600004088 Walker B motif; other site 557600004089 arginine finger; other site 557600004090 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 557600004091 Walker A motif; other site 557600004092 ATP binding site [chemical binding]; other site 557600004093 Walker B motif; other site 557600004094 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 557600004095 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 557600004096 NeuB family; Region: NeuB; cl00496 557600004097 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557600004098 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600004099 Helix-turn-helix domains; Region: HTH; cl00088 557600004100 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 557600004101 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 557600004102 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 557600004103 active site 557600004104 FMN binding site [chemical binding]; other site 557600004105 2,4-decadienoyl-CoA binding site; other site 557600004106 catalytic residue [active] 557600004107 4Fe-4S cluster binding site [ion binding]; other site 557600004108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004109 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 557600004110 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 557600004111 active site 557600004112 catalytic triad [active] 557600004113 oxyanion hole [active] 557600004114 hydrolase; Region: PLN02511 557600004115 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557600004116 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557600004117 CTP synthetase; Validated; Region: pyrG; PRK05380 557600004118 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 557600004119 Catalytic site [active] 557600004120 active site 557600004121 UTP binding site [chemical binding]; other site 557600004122 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 557600004123 active site 557600004124 putative oxyanion hole; other site 557600004125 catalytic triad [active] 557600004126 NeuB family; Region: NeuB; cl00496 557600004127 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557600004128 enolase; Provisional; Region: eno; PRK00077 557600004129 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 557600004130 dimer interface [polypeptide binding]; other site 557600004131 metal binding site [ion binding]; metal-binding site 557600004132 substrate binding pocket [chemical binding]; other site 557600004133 Protein of unknown function (DUF421); Region: DUF421; cl00990 557600004134 Septum formation initiator; Region: DivIC; cl11433 557600004135 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 557600004136 substrate binding site; other site 557600004137 dimer interface; other site 557600004138 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600004139 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600004140 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 557600004141 active site 557600004142 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 557600004143 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 557600004144 tetramer interface [polypeptide binding]; other site 557600004145 active site 557600004146 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 557600004147 benzoate transport; Region: 2A0115; TIGR00895 557600004148 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 557600004149 putative substrate translocation pore; other site 557600004150 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 557600004151 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 557600004152 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 557600004153 heterodimer interface [polypeptide binding]; other site 557600004154 multimer interface [polypeptide binding]; other site 557600004155 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 557600004156 active site 557600004157 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 557600004158 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 557600004159 heterodimer interface [polypeptide binding]; other site 557600004160 active site 557600004161 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 557600004162 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 557600004163 active site 557600004164 catalytic residue [active] 557600004165 dimer interface [polypeptide binding]; other site 557600004166 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 557600004167 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 557600004168 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 557600004169 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 557600004170 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 557600004171 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 557600004172 Trp docking motif [polypeptide binding]; other site 557600004173 putative active site [active] 557600004174 Predicted transporter component [General function prediction only]; Region: COG2391 557600004175 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 557600004176 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 557600004177 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600004178 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 557600004179 Helix-turn-helix domains; Region: HTH; cl00088 557600004180 Bacterial transcriptional regulator; Region: IclR; pfam01614 557600004181 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600004182 Helix-turn-helix domains; Region: HTH; cl00088 557600004183 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 557600004184 substrate binding pocket [chemical binding]; other site 557600004185 dimerization interface [polypeptide binding]; other site 557600004186 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600004187 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600004188 active site 557600004189 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 557600004190 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 557600004191 putative active site [active] 557600004192 putative substrate binding site [chemical binding]; other site 557600004193 ATP binding site [chemical binding]; other site 557600004194 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 557600004195 catalytic core [active] 557600004196 short chain dehydrogenase; Provisional; Region: PRK08251 557600004197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004198 NAD(P) binding site [chemical binding]; other site 557600004199 active site 557600004200 outer membrane porin, OprD family; Region: OprD; pfam03573 557600004201 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 557600004202 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600004203 putative substrate translocation pore; other site 557600004204 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557600004205 Helix-turn-helix domains; Region: HTH; cl00088 557600004206 Amidase; Region: Amidase; cl11426 557600004207 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600004208 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600004209 active site 557600004210 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 557600004211 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 557600004212 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 557600004213 [2Fe-2S] cluster binding site [ion binding]; other site 557600004214 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 557600004215 putative alpha subunit interface [polypeptide binding]; other site 557600004216 putative active site [active] 557600004217 putative substrate binding site [chemical binding]; other site 557600004218 Fe binding site [ion binding]; other site 557600004219 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 557600004220 inter-subunit interface; other site 557600004221 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557600004222 classical (c) SDRs; Region: SDR_c; cd05233 557600004223 NAD(P) binding site [chemical binding]; other site 557600004224 active site 557600004225 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557600004226 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 557600004227 FMN-binding pocket [chemical binding]; other site 557600004228 flavin binding motif; other site 557600004229 phosphate binding motif [ion binding]; other site 557600004230 beta-alpha-beta structure motif; other site 557600004231 NAD binding pocket [chemical binding]; other site 557600004232 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 557600004233 catalytic loop [active] 557600004234 iron binding site [ion binding]; other site 557600004235 Flavin Reductases; Region: FlaRed; cl00801 557600004236 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 557600004237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600004238 tyramine oxidase; Provisional; Region: tynA; PRK14696 557600004239 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 557600004240 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 557600004241 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 557600004242 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 557600004243 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600004244 NAD(P) binding site [chemical binding]; other site 557600004245 catalytic residues [active] 557600004246 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 557600004247 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 557600004248 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 557600004249 active site 557600004250 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 557600004251 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600004252 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 557600004253 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 557600004254 dimer interface [polypeptide binding]; other site 557600004255 active site 557600004256 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600004257 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600004258 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600004259 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600004260 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 557600004261 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 557600004262 dimer interface [polypeptide binding]; other site 557600004263 active site 557600004264 Muconolactone delta-isomerase; Region: MIase; cl01992 557600004265 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 557600004266 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 557600004267 octamer interface [polypeptide binding]; other site 557600004268 active site 557600004269 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557600004270 Helix-turn-helix domains; Region: HTH; cl00088 557600004271 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600004272 dimerization interface [polypeptide binding]; other site 557600004273 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 557600004274 FCD domain; Region: FCD; cl11656 557600004275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600004276 DNA-binding site [nucleotide binding]; DNA binding site 557600004277 Dehydratase family; Region: ILVD_EDD; cl00340 557600004278 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 557600004279 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 557600004280 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 557600004281 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 557600004282 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600004283 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 557600004284 dimer interface [polypeptide binding]; other site 557600004285 NADP binding site [chemical binding]; other site 557600004286 catalytic residues [active] 557600004287 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557600004288 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600004289 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600004290 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 557600004291 putative active site [active] 557600004292 putative FMN binding site [chemical binding]; other site 557600004293 putative substrate binding site [chemical binding]; other site 557600004294 putative catalytic residue [active] 557600004295 Uncharacterized conserved protein [Function unknown]; Region: COG3268 557600004296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004297 NAD(P) binding site [chemical binding]; other site 557600004298 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 557600004299 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 557600004300 potential catalytic triad [active] 557600004301 conserved cys residue [active] 557600004302 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 557600004303 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 557600004304 DNA binding residues [nucleotide binding] 557600004305 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 557600004306 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 557600004307 potential catalytic triad [active] 557600004308 conserved cys residue [active] 557600004309 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 557600004310 Predicted transcriptional regulator [Transcription]; Region: COG1959 557600004311 Helix-turn-helix domains; Region: HTH; cl00088 557600004312 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600004313 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600004314 Helix-turn-helix domains; Region: HTH; cl00088 557600004315 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600004316 Helix-turn-helix domain; Region: HTH_18; pfam12833 557600004317 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600004318 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 557600004319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004320 NAD(P) binding site [chemical binding]; other site 557600004321 active site 557600004322 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 557600004323 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557600004324 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557600004325 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 557600004326 putative active site [active] 557600004327 putative FMN binding site [chemical binding]; other site 557600004328 putative substrate binding site [chemical binding]; other site 557600004329 putative catalytic residue [active] 557600004330 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 557600004331 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 557600004332 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 557600004333 Isochorismatase family; Region: Isochorismatase; pfam00857 557600004334 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 557600004335 catalytic triad [active] 557600004336 dimer interface [polypeptide binding]; other site 557600004337 conserved cis-peptide bond; other site 557600004338 LysR family transcriptional regulator; Provisional; Region: PRK14997 557600004339 Helix-turn-helix domains; Region: HTH; cl00088 557600004340 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 557600004341 putative effector binding pocket; other site 557600004342 putative dimerization interface [polypeptide binding]; other site 557600004343 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 557600004344 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 557600004345 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 557600004346 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 557600004347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004348 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 557600004349 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 557600004350 metal binding site [ion binding]; metal-binding site 557600004351 putative dimer interface [polypeptide binding]; other site 557600004352 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600004353 Helix-turn-helix domains; Region: HTH; cl00088 557600004354 Uncharacterized protein conserved in bacteria (DUF2247); Region: DUF2247; cl01763 557600004355 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 557600004356 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 557600004357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 557600004358 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 557600004359 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 557600004360 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 557600004361 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 557600004362 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 557600004363 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 557600004364 active site 557600004365 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 557600004366 transmembrane helices; other site 557600004367 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557600004368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600004369 DNA-binding site [nucleotide binding]; DNA binding site 557600004370 UTRA domain; Region: UTRA; cl01230 557600004371 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 557600004372 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; cl02567 557600004373 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 557600004374 putative substrate translocation pore; other site 557600004375 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600004376 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600004377 Helix-turn-helix domains; Region: HTH; cl00088 557600004378 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557600004379 putative effector binding pocket; other site 557600004380 dimerization interface [polypeptide binding]; other site 557600004381 Protein of unknown function, DUF606; Region: DUF606; cl01273 557600004382 Protein of unknown function, DUF606; Region: DUF606; cl01273 557600004383 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 557600004384 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 557600004385 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 557600004386 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 557600004387 putative substrate translocation pore; other site 557600004388 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600004389 Helix-turn-helix domains; Region: HTH; cl00088 557600004390 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 557600004391 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 557600004392 dimer interface [polypeptide binding]; other site 557600004393 NADP binding site [chemical binding]; other site 557600004394 catalytic residues [active] 557600004395 Dehydratase family; Region: ILVD_EDD; cl00340 557600004396 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 557600004397 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 557600004398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600004399 Helix-turn-helix domains; Region: HTH; cl00088 557600004400 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 557600004401 putative dimerization interface [polypeptide binding]; other site 557600004402 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557600004403 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 557600004404 putative NAD(P) binding site [chemical binding]; other site 557600004405 active site 557600004406 putative substrate binding site [chemical binding]; other site 557600004407 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 557600004408 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 557600004409 putative substrate translocation pore; other site 557600004410 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 557600004411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600004413 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 557600004414 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557600004415 active site 557600004416 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 557600004417 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 557600004418 active site 557600004419 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 557600004420 nudix motif; other site 557600004421 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 557600004422 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 557600004423 FAD binding site [chemical binding]; other site 557600004424 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 557600004425 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 557600004426 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 557600004427 DNA binding residues [nucleotide binding] 557600004428 dimerization interface [polypeptide binding]; other site 557600004429 indole acetimide hydrolase; Validated; Region: PRK07488 557600004430 Amidase; Region: Amidase; cl11426 557600004431 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 557600004432 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 557600004433 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 557600004434 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557600004435 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 557600004436 putative substrate translocation pore; other site 557600004437 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 557600004438 GH3 auxin-responsive promoter; Region: GH3; cl04006 557600004439 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 557600004440 Survival protein SurE; Region: SurE; cl00448 557600004441 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 557600004442 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 557600004443 ATP binding site [chemical binding]; other site 557600004444 putative Mg++ binding site [ion binding]; other site 557600004445 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 557600004446 nucleotide binding region [chemical binding]; other site 557600004447 ATP-binding site [chemical binding]; other site 557600004448 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600004449 Helix-turn-helix domains; Region: HTH; cl00088 557600004450 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 557600004451 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600004452 Coenzyme A binding pocket [chemical binding]; other site 557600004453 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 557600004454 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600004455 Helix-turn-helix domains; Region: HTH; cl00088 557600004456 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 557600004457 putative effector binding pocket; other site 557600004458 putative dimerization interface [polypeptide binding]; other site 557600004459 classical (c) SDRs; Region: SDR_c; cd05233 557600004460 NAD(P) binding site [chemical binding]; other site 557600004461 active site 557600004462 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 557600004463 classical (c) SDRs; Region: SDR_c; cd05233 557600004464 NAD(P) binding site [chemical binding]; other site 557600004465 active site 557600004466 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600004467 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600004468 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600004469 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600004470 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 557600004471 Helix-turn-helix domains; Region: HTH; cl00088 557600004472 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600004473 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 557600004474 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 557600004475 dimer interface [polypeptide binding]; other site 557600004476 phosphorylation site [posttranslational modification] 557600004477 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 557600004478 ATP binding site [chemical binding]; other site 557600004479 Mg2+ binding site [ion binding]; other site 557600004480 G-X-G motif; other site 557600004481 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557600004482 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 557600004483 active site 557600004484 phosphorylation site [posttranslational modification] 557600004485 intermolecular recognition site; other site 557600004486 dimerization interface [polypeptide binding]; other site 557600004487 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 557600004488 DNA binding site [nucleotide binding] 557600004489 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 557600004490 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 557600004491 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 557600004492 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 557600004493 Protein export membrane protein; Region: SecD_SecF; cl14618 557600004494 Protein export membrane protein; Region: SecD_SecF; cl14618 557600004495 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557600004496 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600004497 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600004498 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557600004499 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600004500 Helix-turn-helix domains; Region: HTH; cl00088 557600004501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004502 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557600004503 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 557600004504 Fimbrial protein; Region: Fimbrial; cl01416 557600004505 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557600004506 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 557600004507 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 557600004508 PapC N-terminal domain; Region: PapC_N; pfam13954 557600004509 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 557600004510 PapC C-terminal domain; Region: PapC_C; pfam13953 557600004511 Fimbrial protein; Region: Fimbrial; cl01416 557600004512 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 557600004513 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 557600004514 substrate binding site [chemical binding]; other site 557600004515 catalytic Zn binding site [ion binding]; other site 557600004516 NAD binding site [chemical binding]; other site 557600004517 structural Zn binding site [ion binding]; other site 557600004518 dimer interface [polypeptide binding]; other site 557600004519 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 557600004520 putative heme binding pocket [chemical binding]; other site 557600004521 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 557600004522 PLD-like domain; Region: PLDc_2; pfam13091 557600004523 putative active site [active] 557600004524 catalytic site [active] 557600004525 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 557600004526 putative active site [active] 557600004527 catalytic site [active] 557600004528 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 557600004529 putative active site [active] 557600004530 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 557600004531 active site 557600004532 dimer interface [polypeptide binding]; other site 557600004533 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 557600004534 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 557600004535 FeS/SAM binding site; other site 557600004536 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 557600004537 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 557600004538 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 557600004539 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600004540 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600004541 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 557600004542 putative active site [active] 557600004543 putative domain interface [polypeptide binding]; other site 557600004544 catalytic site [active] 557600004545 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 557600004546 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 557600004547 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 557600004548 putative active site [active] 557600004549 catalytic site [active] 557600004550 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 557600004551 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 557600004552 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 557600004553 putative active site [active] 557600004554 putative metal binding site [ion binding]; other site 557600004555 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 557600004556 Helix-turn-helix domains; Region: HTH; cl00088 557600004557 metal binding site 2 [ion binding]; metal-binding site 557600004558 putative DNA binding helix; other site 557600004559 metal binding site 1 [ion binding]; metal-binding site 557600004560 dimer interface [polypeptide binding]; other site 557600004561 structural Zn2+ binding site [ion binding]; other site 557600004562 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 557600004563 hydrophobic substrate binding pocket; other site 557600004564 Isochorismatase family; Region: Isochorismatase; pfam00857 557600004565 active site 557600004566 conserved cis-peptide bond; other site 557600004567 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557600004568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004569 NAD(P) binding site [chemical binding]; other site 557600004570 active site 557600004571 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600004572 Walker A/P-loop; other site 557600004573 ATP binding site [chemical binding]; other site 557600004574 Q-loop/lid; other site 557600004575 ABC transporter signature motif; other site 557600004576 Walker B; other site 557600004577 D-loop; other site 557600004578 H-loop/switch region; other site 557600004579 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 557600004580 dimer interface [polypeptide binding]; other site 557600004581 conserved gate region; other site 557600004582 putative PBP binding loops; other site 557600004583 ABC-ATPase subunit interface; other site 557600004584 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 557600004585 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600004586 Helix-turn-helix domains; Region: HTH; cl00088 557600004587 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 557600004588 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 557600004589 [2Fe-2S] cluster binding site [ion binding]; other site 557600004590 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 557600004591 putative alpha subunit interface [polypeptide binding]; other site 557600004592 putative active site [active] 557600004593 putative substrate binding site [chemical binding]; other site 557600004594 Fe binding site [ion binding]; other site 557600004595 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 557600004596 inter-subunit interface; other site 557600004597 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 557600004598 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 557600004599 catalytic loop [active] 557600004600 iron binding site [ion binding]; other site 557600004601 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 557600004602 FAD binding pocket [chemical binding]; other site 557600004603 FAD binding motif [chemical binding]; other site 557600004604 phosphate binding motif [ion binding]; other site 557600004605 beta-alpha-beta structure motif; other site 557600004606 NAD binding pocket [chemical binding]; other site 557600004607 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600004608 Helix-turn-helix domain; Region: HTH_18; pfam12833 557600004609 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600004610 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 557600004611 Flavin Reductases; Region: FlaRed; cl00801 557600004612 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557600004613 classical (c) SDRs; Region: SDR_c; cd05233 557600004614 NAD(P) binding site [chemical binding]; other site 557600004615 active site 557600004616 Dienelactone hydrolase family; Region: DLH; pfam01738 557600004617 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 557600004618 benzoate transport; Region: 2A0115; TIGR00895 557600004619 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 557600004620 putative substrate translocation pore; other site 557600004621 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 557600004622 Helix-turn-helix domain; Region: HTH_18; pfam12833 557600004623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600004624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004625 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 557600004626 NAD(P) binding site [chemical binding]; other site 557600004627 active site 557600004628 Citrate transporter; Region: CitMHS; pfam03600 557600004629 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 557600004630 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600004631 Helix-turn-helix domains; Region: HTH; cl00088 557600004632 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 557600004633 putative dimerization interface [polypeptide binding]; other site 557600004634 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600004635 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600004636 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 557600004637 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 557600004638 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 557600004639 dimer interface [polypeptide binding]; other site 557600004640 active site 557600004641 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600004642 Helix-turn-helix domains; Region: HTH; cl00088 557600004643 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 557600004644 substrate binding pocket [chemical binding]; other site 557600004645 dimerization interface [polypeptide binding]; other site 557600004646 cell density-dependent motility repressor; Provisional; Region: PRK10082 557600004647 Helix-turn-helix domains; Region: HTH; cl00088 557600004648 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 557600004649 dimerization interface [polypeptide binding]; other site 557600004650 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 557600004651 Aspartase; Region: Aspartase; cd01357 557600004652 active sites [active] 557600004653 tetramer interface [polypeptide binding]; other site 557600004654 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557600004655 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600004656 N-terminal plug; other site 557600004657 ligand-binding site [chemical binding]; other site 557600004658 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 557600004659 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 557600004660 putative substrate translocation pore; other site 557600004661 Protein of unknown function (DUF971); Region: DUF971; cl01414 557600004662 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 557600004663 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 557600004664 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557600004665 Walker A/P-loop; other site 557600004666 ATP binding site [chemical binding]; other site 557600004667 Q-loop/lid; other site 557600004668 ABC transporter signature motif; other site 557600004669 Walker B; other site 557600004670 D-loop; other site 557600004671 H-loop/switch region; other site 557600004672 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557600004673 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 557600004674 dimer interface [polypeptide binding]; other site 557600004675 conserved gate region; other site 557600004676 putative PBP binding loops; other site 557600004677 ABC-ATPase subunit interface; other site 557600004678 NMT1-like family; Region: NMT1_2; cl15260 557600004679 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557600004680 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 557600004681 putative oxidoreductase; Provisional; Region: PRK08275 557600004682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004683 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557600004684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600004685 DNA-binding site [nucleotide binding]; DNA binding site 557600004686 UTRA domain; Region: UTRA; cl01230 557600004687 Chromate transporter; Region: Chromate_transp; pfam02417 557600004688 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 557600004689 Chromate transporter; Region: Chromate_transp; pfam02417 557600004690 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600004691 Helix-turn-helix domains; Region: HTH; cl00088 557600004692 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 557600004693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600004694 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600004695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600004696 EamA-like transporter family; Region: EamA; cl01037 557600004697 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557600004698 EamA-like transporter family; Region: EamA; cl01037 557600004699 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 557600004700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004701 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 557600004702 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 557600004703 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 557600004704 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 557600004705 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600004706 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 557600004707 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 557600004708 Walker A motif; other site 557600004709 ATP binding site [chemical binding]; other site 557600004710 Walker B motif; other site 557600004711 arginine finger; other site 557600004712 Helix-turn-helix domains; Region: HTH; cl00088 557600004713 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 557600004714 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557600004715 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 557600004716 putative NAD(P) binding site [chemical binding]; other site 557600004717 catalytic Zn binding site [ion binding]; other site 557600004718 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 557600004719 acetoin reductases; Region: 23BDH; TIGR02415 557600004720 NAD binding site [chemical binding]; other site 557600004721 homotetramer interface [polypeptide binding]; other site 557600004722 homodimer interface [polypeptide binding]; other site 557600004723 active site 557600004724 substrate binding site [chemical binding]; other site 557600004725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004726 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 557600004727 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600004728 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557600004729 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 557600004730 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 557600004731 E3 interaction surface; other site 557600004732 lipoyl attachment site [posttranslational modification]; other site 557600004733 e3 binding domain; Region: E3_binding; pfam02817 557600004734 e3 binding domain; Region: E3_binding; pfam02817 557600004735 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 557600004736 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 557600004737 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 557600004738 alpha subunit interface [polypeptide binding]; other site 557600004739 TPP binding site [chemical binding]; other site 557600004740 heterodimer interface [polypeptide binding]; other site 557600004741 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557600004742 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 557600004743 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 557600004744 tetramer interface [polypeptide binding]; other site 557600004745 TPP-binding site [chemical binding]; other site 557600004746 heterodimer interface [polypeptide binding]; other site 557600004747 phosphorylation loop region [posttranslational modification] 557600004748 lipoyl synthase; Provisional; Region: PRK12928 557600004749 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 557600004750 FeS/SAM binding site; other site 557600004751 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 557600004752 Helix-turn-helix domains; Region: HTH; cl00088 557600004753 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 557600004754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557600004755 metal binding site [ion binding]; metal-binding site 557600004756 active site 557600004757 I-site; other site 557600004758 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 557600004759 Tetramer interface [polypeptide binding]; other site 557600004760 active site 557600004761 FMN-binding site [chemical binding]; other site 557600004762 HemK family putative methylases; Region: hemK_fam; TIGR00536 557600004763 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 557600004764 S-adenosylmethionine binding site [chemical binding]; other site 557600004765 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 557600004766 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 557600004767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600004768 catalytic residue [active] 557600004769 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 557600004770 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 557600004771 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557600004772 Walker A motif; other site 557600004773 ATP binding site [chemical binding]; other site 557600004774 Walker B motif; other site 557600004775 arginine finger; other site 557600004776 YcgL domain; Region: YcgL; cl01189 557600004777 ribonuclease D; Region: rnd; TIGR01388 557600004778 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 557600004779 catalytic site [active] 557600004780 putative active site [active] 557600004781 putative substrate binding site [chemical binding]; other site 557600004782 HRDC domain; Region: HRDC; cl02578 557600004783 recombination protein RecR; Reviewed; Region: recR; PRK00076 557600004784 RecR protein; Region: RecR; pfam02132 557600004785 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 557600004786 putative active site [active] 557600004787 putative metal-binding site [ion binding]; other site 557600004788 tetramer interface [polypeptide binding]; other site 557600004789 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 557600004790 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 557600004791 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 557600004792 homodimer interface [polypeptide binding]; other site 557600004793 substrate-cofactor binding pocket; other site 557600004794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600004795 catalytic residue [active] 557600004796 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 557600004797 phosphoethanolamine N-methyltransferase; Region: PLN02336 557600004798 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 557600004799 S-adenosylmethionine binding site [chemical binding]; other site 557600004800 Gram-negative bacterial tonB protein; Region: TonB; cl10048 557600004801 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 557600004802 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 557600004803 HIT family signature motif; other site 557600004804 catalytic residue [active] 557600004805 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 557600004806 eyelet of channel; other site 557600004807 trimer interface [polypeptide binding]; other site 557600004808 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 557600004809 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 557600004810 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 557600004811 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 557600004812 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 557600004813 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600004814 N-terminal plug; other site 557600004815 ligand-binding site [chemical binding]; other site 557600004816 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557600004817 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 557600004818 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557600004819 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 557600004820 NeuB family; Region: NeuB; cl00496 557600004821 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557600004822 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 557600004823 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 557600004824 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 557600004825 catalytic core [active] 557600004826 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 557600004827 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 557600004828 putative dimer interface [polypeptide binding]; other site 557600004829 active site pocket [active] 557600004830 putative cataytic base [active] 557600004831 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 557600004832 homotrimer interface [polypeptide binding]; other site 557600004833 Walker A motif; other site 557600004834 GTP binding site [chemical binding]; other site 557600004835 Walker B motif; other site 557600004836 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 557600004837 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 557600004838 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 557600004839 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 557600004840 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 557600004841 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 557600004842 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557600004843 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600004844 N-terminal plug; other site 557600004845 ligand-binding site [chemical binding]; other site 557600004846 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 557600004847 Uncharacterized Fe-S protein [General function prediction only]; Region: FhuF; COG4114 557600004848 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 557600004849 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 557600004850 IucA / IucC family; Region: IucA_IucC; pfam04183 557600004851 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 557600004852 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 557600004853 IucA / IucC family; Region: IucA_IucC; pfam04183 557600004854 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 557600004855 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 557600004856 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600004857 putative substrate translocation pore; other site 557600004858 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 557600004859 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 557600004860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600004861 IucA / IucC family; Region: IucA_IucC; pfam04183 557600004862 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 557600004863 IucA / IucC family; Region: IucA_IucC; pfam04183 557600004864 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 557600004865 putative deacylase active site [active] 557600004866 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600004867 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600004868 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600004869 active site 557600004870 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600004871 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600004872 active site 557600004873 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 557600004874 Di-iron ligands [ion binding]; other site 557600004875 Cupin domain; Region: Cupin_2; cl09118 557600004876 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600004877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600004878 periplasmic folding chaperone; Provisional; Region: PRK10788 557600004879 SurA N-terminal domain; Region: SurA_N_3; cl07813 557600004880 PPIC-type PPIASE domain; Region: Rotamase; cl08278 557600004881 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 557600004882 IHF dimer interface [polypeptide binding]; other site 557600004883 IHF - DNA interface [nucleotide binding]; other site 557600004884 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 557600004885 Helix-turn-helix domains; Region: HTH; cl00088 557600004886 Rrf2 family protein; Region: rrf2_super; TIGR00738 557600004887 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 557600004888 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 557600004889 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557600004890 catalytic residue [active] 557600004891 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 557600004892 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 557600004893 trimerization site [polypeptide binding]; other site 557600004894 active site 557600004895 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 557600004896 co-chaperone HscB; Provisional; Region: hscB; PRK05014 557600004897 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 557600004898 HSP70 interaction site [polypeptide binding]; other site 557600004899 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 557600004900 chaperone protein HscA; Provisional; Region: hscA; PRK05183 557600004901 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 557600004902 catalytic loop [active] 557600004903 iron binding site [ion binding]; other site 557600004904 cyclase homology domain; Region: CHD; cd07302 557600004905 nucleotidyl binding site; other site 557600004906 metal binding site [ion binding]; metal-binding site 557600004907 dimer interface [polypeptide binding]; other site 557600004908 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 557600004909 transcription-repair coupling factor; Provisional; Region: PRK10689 557600004910 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 557600004911 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 557600004912 ATP binding site [chemical binding]; other site 557600004913 putative Mg++ binding site [ion binding]; other site 557600004914 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 557600004915 nucleotide binding region [chemical binding]; other site 557600004916 ATP-binding site [chemical binding]; other site 557600004917 TRCF domain; Region: TRCF; cl04088 557600004918 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 557600004919 GST_N family, 2 repeats of the N-terminal domain of soluble GSTs (2 GST_N) subfamily; composed of uncharacterized proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a...; Region: GST_N_2GST_N; cd03041 557600004920 putative C-terminal domain interface [polypeptide binding]; other site 557600004921 putative GSH binding site (G-site) [chemical binding]; other site 557600004922 putative dimer interface [polypeptide binding]; other site 557600004923 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557600004924 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 557600004925 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 557600004926 NAD binding site [chemical binding]; other site 557600004927 active site 557600004928 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 557600004929 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 557600004930 catalytic core [active] 557600004931 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 557600004932 active site 557600004933 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 557600004934 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 557600004935 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 557600004936 Walker A/P-loop; other site 557600004937 ATP binding site [chemical binding]; other site 557600004938 Q-loop/lid; other site 557600004939 ABC transporter signature motif; other site 557600004940 Walker B; other site 557600004941 D-loop; other site 557600004942 H-loop/switch region; other site 557600004943 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 557600004944 Walker A/P-loop; other site 557600004945 ATP binding site [chemical binding]; other site 557600004946 Q-loop/lid; other site 557600004947 ABC transporter signature motif; other site 557600004948 Walker B; other site 557600004949 D-loop; other site 557600004950 H-loop/switch region; other site 557600004951 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557600004952 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 557600004953 dimer interface [polypeptide binding]; other site 557600004954 conserved gate region; other site 557600004955 putative PBP binding loops; other site 557600004956 ABC-ATPase subunit interface; other site 557600004957 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557600004958 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 557600004959 dimer interface [polypeptide binding]; other site 557600004960 conserved gate region; other site 557600004961 putative PBP binding loops; other site 557600004962 ABC-ATPase subunit interface; other site 557600004963 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 557600004964 Zn binding site [ion binding]; other site 557600004965 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_18; cd08505 557600004966 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 557600004967 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_18; cd08505 557600004968 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 557600004969 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557600004970 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600004971 N-terminal plug; other site 557600004972 ligand-binding site [chemical binding]; other site 557600004973 Gram-negative bacterial tonB protein; Region: TonB; cl10048 557600004974 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 557600004975 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 557600004976 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 557600004977 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 557600004978 active site 557600004979 Predicted ATPase [General function prediction only]; Region: COG1485 557600004980 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600004981 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600004982 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600004983 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557600004984 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 557600004985 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 557600004986 active site 557600004987 dimer interface [polypeptide binding]; other site 557600004988 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 557600004989 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 557600004990 IHF dimer interface [polypeptide binding]; other site 557600004991 IHF - DNA interface [nucleotide binding]; other site 557600004992 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 557600004993 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 557600004994 RNA binding site [nucleotide binding]; other site 557600004995 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 557600004996 RNA binding site [nucleotide binding]; other site 557600004997 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 557600004998 RNA binding site [nucleotide binding]; other site 557600004999 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 557600005000 RNA binding site [nucleotide binding]; other site 557600005001 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 557600005002 RNA binding site [nucleotide binding]; other site 557600005003 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 557600005004 RNA binding site [nucleotide binding]; other site 557600005005 cytidylate kinase; Provisional; Region: cmk; PRK00023 557600005006 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 557600005007 CMP-binding site; other site 557600005008 The sites determining sugar specificity; other site 557600005009 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 557600005010 putative hydrophobic ligand binding site [chemical binding]; other site 557600005011 protein interface [polypeptide binding]; other site 557600005012 gate; other site 557600005013 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 557600005014 nucleoside/Zn binding site; other site 557600005015 dimer interface [polypeptide binding]; other site 557600005016 catalytic motif [active] 557600005017 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 557600005018 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600005019 substrate binding site [chemical binding]; other site 557600005020 oxyanion hole (OAH) forming residues; other site 557600005021 trimer interface [polypeptide binding]; other site 557600005022 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 557600005023 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 557600005024 ligand binding site [chemical binding]; other site 557600005025 active site 557600005026 UGI interface [polypeptide binding]; other site 557600005027 catalytic site [active] 557600005028 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 557600005029 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 557600005030 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 557600005031 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600005032 Helix-turn-helix domains; Region: HTH; cl00088 557600005033 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557600005034 active site 557600005035 PilZ domain; Region: PilZ; cl01260 557600005036 DNA polymerase III subunit delta'; Validated; Region: PRK05707 557600005037 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 557600005038 Ligand binding site; other site 557600005039 oligomer interface; other site 557600005040 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 557600005041 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 557600005042 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 557600005043 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 557600005044 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 557600005045 Walker A/P-loop; other site 557600005046 ATP binding site [chemical binding]; other site 557600005047 Q-loop/lid; other site 557600005048 ABC transporter signature motif; other site 557600005049 Walker B; other site 557600005050 D-loop; other site 557600005051 H-loop/switch region; other site 557600005052 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 557600005053 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 557600005054 ParB-like partition proteins; Region: parB_part; TIGR00180 557600005055 ParB-like nuclease domain; Region: ParBc; cl02129 557600005056 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557600005057 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 557600005058 P-loop; other site 557600005059 Magnesium ion binding site [ion binding]; other site 557600005060 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 557600005061 Magnesium ion binding site [ion binding]; other site 557600005062 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 557600005063 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 557600005064 Substrate binding site; other site 557600005065 metal-binding site 557600005066 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600005067 Phosphotransferase enzyme family; Region: APH; pfam01636 557600005068 OstA-like protein; Region: OstA; cl00844 557600005069 Organic solvent tolerance protein; Region: OstA_C; pfam04453 557600005070 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 557600005071 SurA N-terminal domain; Region: SurA_N_3; cl07813 557600005072 PPIC-type PPIASE domain; Region: Rotamase; cl08278 557600005073 PPIC-type PPIASE domain; Region: Rotamase; cl08278 557600005074 hypothetical protein; Provisional; Region: PRK08185 557600005075 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 557600005076 intersubunit interface [polypeptide binding]; other site 557600005077 active site 557600005078 zinc binding site [ion binding]; other site 557600005079 Na+ binding site [ion binding]; other site 557600005080 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; cl00198 557600005081 Phosphoglycerate kinase; Region: PGK; pfam00162 557600005082 substrate binding site [chemical binding]; other site 557600005083 hinge regions; other site 557600005084 ADP binding site [chemical binding]; other site 557600005085 catalytic site [active] 557600005086 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 557600005087 Maf-like protein; Region: Maf; pfam02545 557600005088 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 557600005089 active site 557600005090 dimer interface [polypeptide binding]; other site 557600005091 Cupin superfamily protein; Region: Cupin_4; pfam08007 557600005092 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600005093 Helix-turn-helix domains; Region: HTH; cl00088 557600005094 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 557600005095 dimerization interface [polypeptide binding]; other site 557600005096 putative DNA binding site [nucleotide binding]; other site 557600005097 putative Zn2+ binding site [ion binding]; other site 557600005098 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 557600005099 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 557600005100 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 557600005101 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557600005102 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 557600005103 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 557600005104 Walker A/P-loop; other site 557600005105 ATP binding site [chemical binding]; other site 557600005106 Q-loop/lid; other site 557600005107 ABC transporter signature motif; other site 557600005108 Walker B; other site 557600005109 D-loop; other site 557600005110 H-loop/switch region; other site 557600005111 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 557600005112 putative active site [active] 557600005113 putative catalytic site [active] 557600005114 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600005115 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600005116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600005117 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 557600005118 lipoyl attachment site [posttranslational modification]; other site 557600005119 NAD-dependent deacetylase; Provisional; Region: PRK00481 557600005120 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 557600005121 NAD+ binding site [chemical binding]; other site 557600005122 substrate binding site [chemical binding]; other site 557600005123 Zn binding site [ion binding]; other site 557600005124 Sodium:solute symporter family; Region: SSF; cl00456 557600005125 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 557600005126 Helix-turn-helix domains; Region: HTH; cl00088 557600005127 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 557600005128 Proline dehydrogenase; Region: Pro_dh; cl03282 557600005129 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 557600005130 Glutamate binding site [chemical binding]; other site 557600005131 NAD binding site [chemical binding]; other site 557600005132 catalytic residues [active] 557600005133 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 557600005134 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 557600005135 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 557600005136 Predicted periplasmic protein [Function unknown]; Region: COG3698 557600005137 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 557600005138 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 557600005139 YceI-like domain; Region: YceI; cl01001 557600005140 OsmC-like protein; Region: OsmC; cl00767 557600005141 transketolase; Reviewed; Region: PRK12753 557600005142 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 557600005143 TPP-binding site [chemical binding]; other site 557600005144 dimer interface [polypeptide binding]; other site 557600005145 Plant ATP synthase F0; Region: YMF19; cl07975 557600005146 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 557600005147 PYR/PP interface [polypeptide binding]; other site 557600005148 dimer interface [polypeptide binding]; other site 557600005149 TPP binding site [chemical binding]; other site 557600005150 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557600005151 S-adenosylmethionine synthetase; Validated; Region: PRK05250 557600005152 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 557600005153 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 557600005154 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 557600005155 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 557600005156 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 557600005157 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600005158 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600005159 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 557600005160 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 557600005161 non-specific DNA binding site [nucleotide binding]; other site 557600005162 salt bridge; other site 557600005163 sequence-specific DNA binding site [nucleotide binding]; other site 557600005164 Cupin domain; Region: Cupin_2; cl09118 557600005165 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 557600005166 active site 557600005167 putative DNA-binding cleft [nucleotide binding]; other site 557600005168 dimer interface [polypeptide binding]; other site 557600005169 putative carbohydrate kinase; Provisional; Region: PRK10565 557600005170 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 557600005171 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 557600005172 putative substrate binding site [chemical binding]; other site 557600005173 putative ATP binding site [chemical binding]; other site 557600005174 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 557600005175 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 557600005176 biotin synthase; Provisional; Region: PRK15108 557600005177 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 557600005178 FeS/SAM binding site; other site 557600005179 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 557600005180 Fimbrial protein; Region: Fimbrial; cl01416 557600005181 putative chaperone protein EcpD; Provisional; Region: PRK09926 557600005182 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557600005183 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 557600005184 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 557600005185 PapC N-terminal domain; Region: PapC_N; pfam13954 557600005186 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 557600005187 PapC C-terminal domain; Region: PapC_C; pfam13953 557600005188 putative major fimbrial protein SthE; Provisional; Region: PRK15292 557600005189 Fimbrial protein; Region: Fimbrial; cl01416 557600005190 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600005191 Helix-turn-helix domains; Region: HTH; cl00088 557600005192 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600005193 dimerization interface [polypeptide binding]; other site 557600005194 EamA-like transporter family; Region: EamA; cl01037 557600005195 Sodium:solute symporter family; Region: SSF; cl00456 557600005196 Predicted membrane protein [Function unknown]; Region: COG4125 557600005197 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 557600005198 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 557600005199 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600005200 Helix-turn-helix domains; Region: HTH; cl00088 557600005201 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 557600005202 dimerization interface [polypeptide binding]; other site 557600005203 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 557600005204 active site 557600005205 Int/Topo IB signature motif; other site 557600005206 DNA binding site [nucleotide binding] 557600005207 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600005208 Helix-turn-helix domains; Region: HTH; cl00088 557600005209 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 557600005210 putative acyl-acceptor binding pocket; other site 557600005211 Transcriptional regulator; Region: Transcrip_reg; cl00361 557600005212 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557600005213 Helix-turn-helix domains; Region: HTH; cl00088 557600005214 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557600005215 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 557600005216 Walker A/P-loop; other site 557600005217 ATP binding site [chemical binding]; other site 557600005218 Q-loop/lid; other site 557600005219 ABC transporter signature motif; other site 557600005220 Walker B; other site 557600005221 D-loop; other site 557600005222 H-loop/switch region; other site 557600005223 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557600005224 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 557600005225 dimer interface [polypeptide binding]; other site 557600005226 conserved gate region; other site 557600005227 putative PBP binding loops; other site 557600005228 ABC-ATPase subunit interface; other site 557600005229 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557600005230 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 557600005231 dimer interface [polypeptide binding]; other site 557600005232 conserved gate region; other site 557600005233 putative PBP binding loops; other site 557600005234 ABC-ATPase subunit interface; other site 557600005235 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 557600005236 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 557600005237 substrate binding pocket [chemical binding]; other site 557600005238 membrane-bound complex binding site; other site 557600005239 hinge residues; other site 557600005240 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 557600005241 C-terminal domain interface [polypeptide binding]; other site 557600005242 GSH binding site (G-site) [chemical binding]; other site 557600005243 dimer interface [polypeptide binding]; other site 557600005244 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 557600005245 N-terminal domain interface [polypeptide binding]; other site 557600005246 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 557600005247 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600005248 active site 557600005249 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 557600005250 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 557600005251 Flavin binding site [chemical binding]; other site 557600005252 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 557600005253 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 557600005254 active site 557600005255 non-prolyl cis peptide bond; other site 557600005256 NMT1-like family; Region: NMT1_2; cl15260 557600005257 NMT1-like family; Region: NMT1_2; cl15260 557600005258 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 557600005259 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 557600005260 Walker A/P-loop; other site 557600005261 ATP binding site [chemical binding]; other site 557600005262 Q-loop/lid; other site 557600005263 ABC transporter signature motif; other site 557600005264 Walker B; other site 557600005265 D-loop; other site 557600005266 H-loop/switch region; other site 557600005267 NIL domain; Region: NIL; cl09633 557600005268 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 557600005269 dimer interface [polypeptide binding]; other site 557600005270 conserved gate region; other site 557600005271 ABC-ATPase subunit interface; other site 557600005272 GTP-binding protein YchF; Reviewed; Region: PRK09601 557600005273 YchF GTPase; Region: YchF; cd01900 557600005274 G1 box; other site 557600005275 GTP/Mg2+ binding site [chemical binding]; other site 557600005276 Switch I region; other site 557600005277 G2 box; other site 557600005278 Switch II region; other site 557600005279 G3 box; other site 557600005280 G4 box; other site 557600005281 G5 box; other site 557600005282 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 557600005283 Protein of unknown function (DUF962); Region: DUF962; cl01879 557600005284 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557600005285 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 557600005286 ligand binding site [chemical binding]; other site 557600005287 flexible hinge region; other site 557600005288 Helix-turn-helix domains; Region: HTH; cl00088 557600005289 AzlC protein; Region: AzlC; cl00570 557600005290 putative L-valine exporter; Provisional; Region: PRK10408 557600005291 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cl01268 557600005292 trimer interface [polypeptide binding]; other site 557600005293 putative substrate binding pocket [chemical binding]; other site 557600005294 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 557600005295 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 557600005296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600005297 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600005298 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 557600005299 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557600005300 metal binding triad; other site 557600005301 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 557600005302 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 557600005303 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 557600005304 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 557600005305 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 557600005306 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 557600005307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600005308 homodimer interface [polypeptide binding]; other site 557600005309 catalytic residue [active] 557600005310 LysE type translocator; Region: LysE; cl00565 557600005311 Cupin domain; Region: Cupin_2; cl09118 557600005312 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600005313 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600005314 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600005315 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 557600005316 catalytic residues [active] 557600005317 dimer interface [polypeptide binding]; other site 557600005318 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 557600005319 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 557600005320 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 557600005321 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 557600005322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600005323 homodimer interface [polypeptide binding]; other site 557600005324 catalytic residue [active] 557600005325 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557600005326 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 557600005327 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 557600005328 active site 557600005329 homodimer interface [polypeptide binding]; other site 557600005330 homotetramer interface [polypeptide binding]; other site 557600005331 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 557600005332 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 557600005333 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 557600005334 generic binding surface II; other site 557600005335 generic binding surface I; other site 557600005336 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 557600005337 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 557600005338 serine O-acetyltransferase; Region: cysE; TIGR01172 557600005339 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 557600005340 trimer interface [polypeptide binding]; other site 557600005341 active site 557600005342 substrate binding site [chemical binding]; other site 557600005343 CoA binding site [chemical binding]; other site 557600005344 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 557600005345 TPR motif; other site 557600005346 binding surface 557600005347 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 557600005348 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600005349 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 557600005350 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600005351 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 557600005352 catalytic residue [active] 557600005353 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 557600005354 catalytic residues [active] 557600005355 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 557600005356 Chromate transporter; Region: Chromate_transp; pfam02417 557600005357 Chromate transporter; Region: Chromate_transp; pfam02417 557600005358 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557600005359 Helix-turn-helix domains; Region: HTH; cl00088 557600005360 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 557600005361 putative dimerization interface [polypeptide binding]; other site 557600005362 putative substrate binding pocket [chemical binding]; other site 557600005363 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 557600005364 Membrane transport protein; Region: Mem_trans; cl09117 557600005365 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 557600005366 dimerization interface [polypeptide binding]; other site 557600005367 putative DNA binding site [nucleotide binding]; other site 557600005368 putative Zn2+ binding site [ion binding]; other site 557600005369 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 557600005370 ArsC family; Region: ArsC; pfam03960 557600005371 catalytic residues [active] 557600005372 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 557600005373 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 557600005374 active site 557600005375 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 557600005376 Isochorismatase family; Region: Isochorismatase; pfam00857 557600005377 catalytic triad [active] 557600005378 dimer interface [polypeptide binding]; other site 557600005379 conserved cis-peptide bond; other site 557600005380 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600005381 Helix-turn-helix domains; Region: HTH; cl00088 557600005382 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557600005383 putative effector binding pocket; other site 557600005384 dimerization interface [polypeptide binding]; other site 557600005385 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557600005386 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600005387 DNA-binding site [nucleotide binding]; DNA binding site 557600005388 FCD domain; Region: FCD; cl11656 557600005389 Sodium:solute symporter family; Region: SSF; cl00456 557600005390 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 557600005391 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 557600005392 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 557600005393 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557600005394 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 557600005395 dimer interface [polypeptide binding]; other site 557600005396 conserved gate region; other site 557600005397 putative PBP binding loops; other site 557600005398 ABC-ATPase subunit interface; other site 557600005399 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 557600005400 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 557600005401 Walker A/P-loop; other site 557600005402 ATP binding site [chemical binding]; other site 557600005403 Q-loop/lid; other site 557600005404 ABC transporter signature motif; other site 557600005405 Walker B; other site 557600005406 D-loop; other site 557600005407 H-loop/switch region; other site 557600005408 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557600005409 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 557600005410 substrate binding pocket [chemical binding]; other site 557600005411 membrane-bound complex binding site; other site 557600005412 hinge residues; other site 557600005413 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 557600005414 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 557600005415 putative substrate translocation pore; other site 557600005416 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 557600005417 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 557600005418 active site 557600005419 non-prolyl cis peptide bond; other site 557600005420 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600005421 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 557600005422 active site 557600005423 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 557600005424 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 557600005425 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 557600005426 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 557600005427 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600005428 DNA-binding site [nucleotide binding]; DNA binding site 557600005429 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 557600005430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600005431 homodimer interface [polypeptide binding]; other site 557600005432 catalytic residue [active] 557600005433 Helix-turn-helix domains; Region: HTH; cl00088 557600005434 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600005435 dimerization interface [polypeptide binding]; other site 557600005436 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600005437 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 557600005438 Malonate transporter MadL subunit; Region: MadL; cl04273 557600005439 Acyl transferase domain; Region: Acyl_transf_1; cl08282 557600005440 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 557600005441 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 557600005442 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 557600005443 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 557600005444 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 557600005445 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 557600005446 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 557600005447 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600005448 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 557600005449 putative substrate translocation pore; other site 557600005450 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 557600005451 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600005452 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 557600005453 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 557600005454 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600005455 DNA-binding site [nucleotide binding]; DNA binding site 557600005456 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 557600005457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600005458 homodimer interface [polypeptide binding]; other site 557600005459 catalytic residue [active] 557600005460 LrgB-like family; Region: LrgB; cl00596 557600005461 LrgA family; Region: LrgA; cl00608 557600005462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600005463 Helix-turn-helix domains; Region: HTH; cl00088 557600005464 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 557600005465 putative dimerization interface [polypeptide binding]; other site 557600005466 glutathione S-transferase; Provisional; Region: PRK15113 557600005467 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 557600005468 C-terminal domain interface [polypeptide binding]; other site 557600005469 GSH binding site (G-site) [chemical binding]; other site 557600005470 dimer interface [polypeptide binding]; other site 557600005471 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 557600005472 putative dimer interface [polypeptide binding]; other site 557600005473 N-terminal domain interface [polypeptide binding]; other site 557600005474 putative substrate binding pocket (H-site) [chemical binding]; other site 557600005475 putative S-transferase; Provisional; Region: PRK11752 557600005476 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 557600005477 C-terminal domain interface [polypeptide binding]; other site 557600005478 GSH binding site (G-site) [chemical binding]; other site 557600005479 dimer interface [polypeptide binding]; other site 557600005480 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 557600005481 dimer interface [polypeptide binding]; other site 557600005482 N-terminal domain interface [polypeptide binding]; other site 557600005483 active site 557600005484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600005485 Helix-turn-helix domains; Region: HTH; cl00088 557600005486 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 557600005487 putative effector binding pocket; other site 557600005488 putative dimerization interface [polypeptide binding]; other site 557600005489 short chain dehydrogenase; Provisional; Region: PRK12937 557600005490 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 557600005491 NADP binding site [chemical binding]; other site 557600005492 homodimer interface [polypeptide binding]; other site 557600005493 active site 557600005494 substrate binding site [chemical binding]; other site 557600005495 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 557600005496 active site residue [active] 557600005497 serine O-acetyltransferase; Region: PLN02694 557600005498 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 557600005499 trimer interface [polypeptide binding]; other site 557600005500 active site 557600005501 substrate binding site [chemical binding]; other site 557600005502 CoA binding site [chemical binding]; other site 557600005503 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557600005504 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 557600005505 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557600005506 catalytic residue [active] 557600005507 LysE type translocator; Region: LysE; cl00565 557600005508 transcriptional activator TtdR; Provisional; Region: PRK09801 557600005509 Helix-turn-helix domains; Region: HTH; cl00088 557600005510 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557600005511 putative effector binding pocket; other site 557600005512 dimerization interface [polypeptide binding]; other site 557600005513 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 557600005514 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 557600005515 substrate binding pocket [chemical binding]; other site 557600005516 membrane-bound complex binding site; other site 557600005517 hinge residues; other site 557600005518 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 557600005519 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 557600005520 substrate binding pocket [chemical binding]; other site 557600005521 membrane-bound complex binding site; other site 557600005522 hinge residues; other site 557600005523 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557600005524 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 557600005525 Walker A/P-loop; other site 557600005526 ATP binding site [chemical binding]; other site 557600005527 Q-loop/lid; other site 557600005528 ABC transporter signature motif; other site 557600005529 Walker B; other site 557600005530 D-loop; other site 557600005531 H-loop/switch region; other site 557600005532 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 557600005533 dimer interface [polypeptide binding]; other site 557600005534 conserved gate region; other site 557600005535 putative PBP binding loops; other site 557600005536 ABC-ATPase subunit interface; other site 557600005537 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 557600005538 dimer interface [polypeptide binding]; other site 557600005539 conserved gate region; other site 557600005540 ABC-ATPase subunit interface; other site 557600005541 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600005542 Coenzyme A binding pocket [chemical binding]; other site 557600005543 Response regulator receiver domain; Region: Response_reg; pfam00072 557600005544 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 557600005545 active site 557600005546 phosphorylation site [posttranslational modification] 557600005547 intermolecular recognition site; other site 557600005548 dimerization interface [polypeptide binding]; other site 557600005549 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 557600005550 DNA binding residues [nucleotide binding] 557600005551 dimerization interface [polypeptide binding]; other site 557600005552 Sodium:solute symporter family; Region: SSF; cl00456 557600005553 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 557600005554 dimer interface [polypeptide binding]; other site 557600005555 phosphorylation site [posttranslational modification] 557600005556 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 557600005557 ATP binding site [chemical binding]; other site 557600005558 Mg2+ binding site [ion binding]; other site 557600005559 G-X-G motif; other site 557600005560 Response regulator receiver domain; Region: Response_reg; pfam00072 557600005561 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 557600005562 active site 557600005563 phosphorylation site [posttranslational modification] 557600005564 intermolecular recognition site; other site 557600005565 dimerization interface [polypeptide binding]; other site 557600005566 Sodium:solute symporter family; Region: SSF; cl00456 557600005567 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557600005568 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 557600005569 putative DNA binding site [nucleotide binding]; other site 557600005570 putative Zn2+ binding site [ion binding]; other site 557600005571 Helix-turn-helix domains; Region: HTH; cl00088 557600005572 LysE type translocator; Region: LysE; cl00565 557600005573 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 557600005574 Catalytic site [active] 557600005575 Stress-induced bacterial acidophilic repeat motif; Region: KGG; pfam10685 557600005576 short chain dehydrogenase; Provisional; Region: PRK06701 557600005577 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 557600005578 NAD binding site [chemical binding]; other site 557600005579 metal binding site [ion binding]; metal-binding site 557600005580 active site 557600005581 hydroperoxidase II; Provisional; Region: katE; PRK11249 557600005582 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 557600005583 tetramer interface [polypeptide binding]; other site 557600005584 heme binding pocket [chemical binding]; other site 557600005585 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 557600005586 domain interactions; other site 557600005587 Competence-damaged protein; Region: CinA; cl00666 557600005588 Helix-turn-helix domains; Region: HTH; cl00088 557600005589 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557600005590 putative effector binding pocket; other site 557600005591 dimerization interface [polypeptide binding]; other site 557600005592 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 557600005593 active site 557600005594 catalytic triad [active] 557600005595 oxyanion hole [active] 557600005596 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 557600005597 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 557600005598 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 557600005599 S-adenosylmethionine binding site [chemical binding]; other site 557600005600 AMP-binding domain protein; Validated; Region: PRK08315 557600005601 AMP-binding enzyme; Region: AMP-binding; cl15778 557600005602 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600005603 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600005604 Helix-turn-helix domains; Region: HTH; cl00088 557600005605 isovaleryl-CoA dehydrogenase; Region: PLN02519 557600005606 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 557600005607 substrate binding site [chemical binding]; other site 557600005608 FAD binding site [chemical binding]; other site 557600005609 catalytic base [active] 557600005610 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 557600005611 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 557600005612 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 557600005613 enoyl-CoA hydratase; Provisional; Region: PRK05995 557600005614 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600005615 substrate binding site [chemical binding]; other site 557600005616 oxyanion hole (OAH) forming residues; other site 557600005617 trimer interface [polypeptide binding]; other site 557600005618 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 557600005619 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557600005620 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600005621 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 557600005622 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 557600005623 carboxyltransferase (CT) interaction site; other site 557600005624 biotinylation site [posttranslational modification]; other site 557600005625 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 557600005626 active site 557600005627 catalytic residues [active] 557600005628 metal binding site [ion binding]; metal-binding site 557600005629 transcriptional regulator; Provisional; Region: PRK10632 557600005630 Helix-turn-helix domains; Region: HTH; cl00088 557600005631 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557600005632 putative effector binding pocket; other site 557600005633 dimerization interface [polypeptide binding]; other site 557600005634 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 557600005635 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 557600005636 dimer interface [polypeptide binding]; other site 557600005637 PYR/PP interface [polypeptide binding]; other site 557600005638 TPP binding site [chemical binding]; other site 557600005639 substrate binding site [chemical binding]; other site 557600005640 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 557600005641 TPP-binding site [chemical binding]; other site 557600005642 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 557600005643 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 557600005644 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 557600005645 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 557600005646 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600005647 active site 557600005648 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 557600005649 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 557600005650 CoenzymeA binding site [chemical binding]; other site 557600005651 subunit interaction site [polypeptide binding]; other site 557600005652 PHB binding site; other site 557600005653 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 557600005654 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600005655 putative substrate translocation pore; other site 557600005656 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600005657 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 557600005658 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 557600005659 benzoate transport; Region: 2A0115; TIGR00895 557600005660 putative substrate translocation pore; other site 557600005661 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600005662 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600005663 active site 557600005664 enoyl-CoA hydratase; Provisional; Region: PRK08138 557600005665 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600005666 substrate binding site [chemical binding]; other site 557600005667 oxyanion hole (OAH) forming residues; other site 557600005668 trimer interface [polypeptide binding]; other site 557600005669 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 557600005670 classical (c) SDRs; Region: SDR_c; cd05233 557600005671 NAD(P) binding site [chemical binding]; other site 557600005672 active site 557600005673 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 557600005674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600005675 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557600005676 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557600005677 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 557600005678 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 557600005679 dimer interface [polypeptide binding]; other site 557600005680 active site 557600005681 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557600005682 Helix-turn-helix domains; Region: HTH; cl00088 557600005683 Bacterial transcriptional regulator; Region: IclR; pfam01614 557600005684 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557600005685 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 557600005686 putative substrate translocation pore; other site 557600005687 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 557600005688 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 557600005689 FMN binding site [chemical binding]; other site 557600005690 substrate binding site [chemical binding]; other site 557600005691 putative catalytic residue [active] 557600005692 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600005693 enoyl-CoA hydratase; Provisional; Region: PRK06688 557600005694 substrate binding site [chemical binding]; other site 557600005695 oxyanion hole (OAH) forming residues; other site 557600005696 trimer interface [polypeptide binding]; other site 557600005697 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557600005698 Helix-turn-helix domains; Region: HTH; cl00088 557600005699 Bacterial transcriptional regulator; Region: IclR; pfam01614 557600005700 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557600005701 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557600005702 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600005703 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600005704 active site 557600005705 benzoate transport; Region: 2A0115; TIGR00895 557600005706 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 557600005707 putative substrate translocation pore; other site 557600005708 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 557600005709 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 557600005710 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 557600005711 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557600005712 catalytic residue [active] 557600005713 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 557600005714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600005715 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 557600005716 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 557600005717 dimer interface [polypeptide binding]; other site 557600005718 conserved gate region; other site 557600005719 putative PBP binding loops; other site 557600005720 ABC-ATPase subunit interface; other site 557600005721 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 557600005722 dimer interface [polypeptide binding]; other site 557600005723 conserved gate region; other site 557600005724 putative PBP binding loops; other site 557600005725 ABC-ATPase subunit interface; other site 557600005726 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 557600005727 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600005728 Walker A/P-loop; other site 557600005729 ATP binding site [chemical binding]; other site 557600005730 Q-loop/lid; other site 557600005731 ABC transporter signature motif; other site 557600005732 Walker B; other site 557600005733 D-loop; other site 557600005734 H-loop/switch region; other site 557600005735 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600005736 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 557600005737 transcriptional regulator protein; Region: phnR; TIGR03337 557600005738 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600005739 DNA-binding site [nucleotide binding]; DNA binding site 557600005740 UTRA domain; Region: UTRA; cl01230 557600005741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600005742 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 557600005743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600005744 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 557600005745 Helix-turn-helix domains; Region: HTH; cl00088 557600005746 Bacterial transcriptional regulator; Region: IclR; pfam01614 557600005747 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600005748 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600005749 Helix-turn-helix domains; Region: HTH; cl00088 557600005750 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 557600005751 putative effector binding pocket; other site 557600005752 putative dimerization interface [polypeptide binding]; other site 557600005753 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 557600005754 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600005755 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 557600005756 tetramerization interface [polypeptide binding]; other site 557600005757 NAD(P) binding site [chemical binding]; other site 557600005758 catalytic residues [active] 557600005759 Sodium:solute symporter family; Region: SSF; cl00456 557600005760 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600005761 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 557600005762 NAD(P) binding site [chemical binding]; other site 557600005763 catalytic residues [active] 557600005764 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 557600005765 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 557600005766 Flavin Reductases; Region: FlaRed; cl00801 557600005767 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600005768 Amino acid synthesis; Region: AA_synth; pfam06684 557600005769 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600005770 DNA-binding site [nucleotide binding]; DNA binding site 557600005771 FCD domain; Region: FCD; cl11656 557600005772 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 557600005773 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 557600005774 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 557600005775 putative heme binding pocket [chemical binding]; other site 557600005776 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 557600005777 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 557600005778 putative substrate translocation pore; other site 557600005779 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 557600005780 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 557600005781 active site 557600005782 catalytic residues [active] 557600005783 metal binding site [ion binding]; metal-binding site 557600005784 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557600005785 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557600005786 Helix-turn-helix domains; Region: HTH; cl00088 557600005787 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 557600005788 putative dimerization interface [polypeptide binding]; other site 557600005789 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 557600005790 DNA-binding site [nucleotide binding]; DNA binding site 557600005791 RNA-binding motif; other site 557600005792 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600005793 Helix-turn-helix domains; Region: HTH; cl00088 557600005794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600005795 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 557600005796 recombination protein F; Reviewed; Region: recF; PRK00064 557600005797 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 557600005798 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 557600005799 putative active site [active] 557600005800 putative metal-binding site [ion binding]; other site 557600005801 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 557600005802 CoenzymeA binding site [chemical binding]; other site 557600005803 subunit interaction site [polypeptide binding]; other site 557600005804 PHB binding site; other site 557600005805 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 557600005806 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 557600005807 putative trimer interface [polypeptide binding]; other site 557600005808 putative metal binding site [ion binding]; other site 557600005809 PaaX-like protein; Region: PaaX; pfam07848 557600005810 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 557600005811 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 557600005812 AMP-binding enzyme; Region: AMP-binding; cl15778 557600005813 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 557600005814 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 557600005815 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 557600005816 dimer interface [polypeptide binding]; other site 557600005817 active site 557600005818 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 557600005819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600005820 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557600005821 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557600005822 enoyl-CoA hydratase; Provisional; Region: PRK08140 557600005823 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600005824 substrate binding site [chemical binding]; other site 557600005825 oxyanion hole (OAH) forming residues; other site 557600005826 trimer interface [polypeptide binding]; other site 557600005827 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 557600005828 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600005829 substrate binding site [chemical binding]; other site 557600005830 oxyanion hole (OAH) forming residues; other site 557600005831 trimer interface [polypeptide binding]; other site 557600005832 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 557600005833 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 557600005834 FAD binding pocket [chemical binding]; other site 557600005835 FAD binding motif [chemical binding]; other site 557600005836 phosphate binding motif [ion binding]; other site 557600005837 beta-alpha-beta structure motif; other site 557600005838 NAD(p) ribose binding residues [chemical binding]; other site 557600005839 NAD binding pocket [chemical binding]; other site 557600005840 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 557600005841 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 557600005842 catalytic loop [active] 557600005843 iron binding site [ion binding]; other site 557600005844 Domain of unknown function DUF59; Region: DUF59; cl00941 557600005845 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 557600005846 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 557600005847 Phenylacetic acid degradation B; Region: PaaB; cl01371 557600005848 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 557600005849 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 557600005850 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 557600005851 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 557600005852 substrate binding site [chemical binding]; other site 557600005853 dimer interface [polypeptide binding]; other site 557600005854 NADP binding site [chemical binding]; other site 557600005855 catalytic residues [active] 557600005856 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 557600005857 substrate binding site [chemical binding]; other site 557600005858 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 557600005859 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 557600005860 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 557600005861 amino acid transporter; Region: 2A0306; TIGR00909 557600005862 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 557600005863 dimer interface [polypeptide binding]; other site 557600005864 NADP binding site [chemical binding]; other site 557600005865 catalytic residues [active] 557600005866 metabolite-proton symporter; Region: 2A0106; TIGR00883 557600005867 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 557600005868 putative substrate translocation pore; other site 557600005869 PAS fold; Region: PAS_4; pfam08448 557600005870 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 557600005871 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600005872 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 557600005873 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 557600005874 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557600005875 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600005876 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 557600005877 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 557600005878 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557600005879 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600005880 DNA-binding site [nucleotide binding]; DNA binding site 557600005881 FCD domain; Region: FCD; cl11656 557600005882 EamA-like transporter family; Region: EamA; cl01037 557600005883 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557600005884 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557600005885 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 557600005886 inhibitor site; inhibition site 557600005887 active site 557600005888 dimer interface [polypeptide binding]; other site 557600005889 catalytic residue [active] 557600005890 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 557600005891 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 557600005892 Domain of unknown function (DUF333); Region: DUF333; pfam03891 557600005893 Potato inhibitor I family; Region: potato_inhibit; cl15459 557600005894 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 557600005895 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 557600005896 DNA binding residues [nucleotide binding] 557600005897 dimer interface [polypeptide binding]; other site 557600005898 [2Fe-2S] cluster binding site [ion binding]; other site 557600005899 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 557600005900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600005901 Coenzyme A binding pocket [chemical binding]; other site 557600005902 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 557600005903 putative cyanate transporter; Provisional; Region: cynX; PRK09705 557600005904 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 557600005905 putative substrate translocation pore; other site 557600005906 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 557600005907 nucleoside/Zn binding site; other site 557600005908 dimer interface [polypeptide binding]; other site 557600005909 catalytic motif [active] 557600005910 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 557600005911 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 557600005912 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 557600005913 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 557600005914 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 557600005915 Helix-turn-helix domains; Region: HTH; cl00088 557600005916 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600005917 dimerization interface [polypeptide binding]; other site 557600005918 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 557600005919 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 557600005920 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 557600005921 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 557600005922 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 557600005923 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 557600005924 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 557600005925 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 557600005926 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 557600005927 Walker A motif; other site 557600005928 ATP binding site [chemical binding]; other site 557600005929 Walker B motif; other site 557600005930 arginine finger; other site 557600005931 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 557600005932 Walker A motif; other site 557600005933 ATP binding site [chemical binding]; other site 557600005934 Walker B motif; other site 557600005935 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 557600005936 PAAR motif; Region: PAAR_motif; cl15808 557600005937 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 557600005938 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557600005939 ligand binding site [chemical binding]; other site 557600005940 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 557600005941 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 557600005942 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 557600005943 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 557600005944 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 557600005945 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 557600005946 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 557600005947 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 557600005948 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 557600005949 Protein of unknown function (DUF796); Region: DUF796; cl01226 557600005950 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 557600005951 Protein of unknown function (DUF877); Region: DUF877; pfam05943 557600005952 Protein of unknown function (DUF770); Region: DUF770; cl01402 557600005953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 557600005954 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 557600005955 dimer interface [polypeptide binding]; other site 557600005956 conserved gate region; other site 557600005957 putative PBP binding loops; other site 557600005958 ABC-ATPase subunit interface; other site 557600005959 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557600005960 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 557600005961 Walker A/P-loop; other site 557600005962 ATP binding site [chemical binding]; other site 557600005963 Q-loop/lid; other site 557600005964 ABC transporter signature motif; other site 557600005965 Walker B; other site 557600005966 D-loop; other site 557600005967 H-loop/switch region; other site 557600005968 NMT1-like family; Region: NMT1_2; cl15260 557600005969 allophanate hydrolase; Provisional; Region: PRK08186 557600005970 Amidase; Region: Amidase; cl11426 557600005971 nickel responsive regulator; Provisional; Region: PRK04460 557600005972 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 557600005973 Helix-turn-helix domains; Region: HTH; cl00088 557600005974 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600005975 urea carboxylase; Region: urea_carbox; TIGR02712 557600005976 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557600005977 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600005978 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 557600005979 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 557600005980 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 557600005981 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 557600005982 carboxyltransferase (CT) interaction site; other site 557600005983 biotinylation site [posttranslational modification]; other site 557600005984 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 557600005985 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 557600005986 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 557600005987 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 557600005988 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 557600005989 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557600005990 NAD binding site [chemical binding]; other site 557600005991 catalytic Zn binding site [ion binding]; other site 557600005992 structural Zn binding site [ion binding]; other site 557600005993 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 557600005994 putative hydrophobic ligand binding site [chemical binding]; other site 557600005995 protein interface [polypeptide binding]; other site 557600005996 gate; other site 557600005997 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600005998 Helix-turn-helix domains; Region: HTH; cl00088 557600005999 Sel1 repeat; Region: Sel1; cl02723 557600006000 Sel1 repeat; Region: Sel1; cl02723 557600006001 Sel1 repeat; Region: Sel1; cl02723 557600006002 Sel1 repeat; Region: Sel1; cl02723 557600006003 Sel1 repeat; Region: Sel1; cl02723 557600006004 Sel1 repeat; Region: Sel1; cl02723 557600006005 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 557600006006 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 557600006007 putative Cl- selectivity filter; other site 557600006008 putative pore gating glutamate residue; other site 557600006009 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 557600006010 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557600006011 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600006012 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 557600006013 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 557600006014 carboxyltransferase (CT) interaction site; other site 557600006015 biotinylation site [posttranslational modification]; other site 557600006016 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 557600006017 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 557600006018 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 557600006019 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 557600006020 LamB/YcsF family; Region: LamB_YcsF; cl00664 557600006021 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 557600006022 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600006023 Helix-turn-helix domains; Region: HTH; cl00088 557600006024 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 557600006025 dimerization interface [polypeptide binding]; other site 557600006026 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 557600006027 RHS Repeat; Region: RHS_repeat; cl11982 557600006028 RHS Repeat; Region: RHS_repeat; cl11982 557600006029 RHS Repeat; Region: RHS_repeat; cl11982 557600006030 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 557600006031 RHS Repeat; Region: RHS_repeat; cl11982 557600006032 RHS Repeat; Region: RHS_repeat; cl11982 557600006033 RHS protein; Region: RHS; pfam03527 557600006034 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 557600006035 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 557600006036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 557600006037 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 557600006038 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557600006039 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 557600006040 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 557600006041 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600006042 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600006043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006044 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557600006045 BNR repeat-like domain; Region: BNR_2; pfam13088 557600006046 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 557600006047 benzoate transport; Region: 2A0115; TIGR00895 557600006048 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 557600006049 putative substrate translocation pore; other site 557600006050 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 557600006051 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600006052 Helix-turn-helix domains; Region: HTH; cl00088 557600006053 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 557600006054 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 557600006055 putative acyl-acceptor binding pocket; other site 557600006056 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 557600006057 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 557600006058 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557600006059 Helix-turn-helix domains; Region: HTH; cl00088 557600006060 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 557600006061 MutS domain I; Region: MutS_I; pfam01624 557600006062 MutS domain II; Region: MutS_II; pfam05188 557600006063 MutS family domain IV; Region: MutS_IV; pfam05190 557600006064 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 557600006065 Walker A/P-loop; other site 557600006066 ATP binding site [chemical binding]; other site 557600006067 Q-loop/lid; other site 557600006068 ABC transporter signature motif; other site 557600006069 Walker B; other site 557600006070 D-loop; other site 557600006071 H-loop/switch region; other site 557600006072 Predicted acetyltransferase [General function prediction only]; Region: COG3153 557600006073 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600006074 Coenzyme A binding pocket [chemical binding]; other site 557600006075 4Fe-4S binding domain; Region: Fer4; cl02805 557600006076 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 557600006077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 557600006078 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 557600006079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006080 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 557600006081 Ligand Binding Site [chemical binding]; other site 557600006082 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 557600006083 putative trimer interface [polypeptide binding]; other site 557600006084 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 557600006085 trimer interface [polypeptide binding]; other site 557600006086 active site 557600006087 substrate binding site [chemical binding]; other site 557600006088 putative CoA binding site [chemical binding]; other site 557600006089 CoA binding site [chemical binding]; other site 557600006090 Uncharacterized conserved protein [Function unknown]; Region: COG1739 557600006091 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 557600006092 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 557600006093 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 557600006094 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 557600006095 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 557600006096 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 557600006097 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 557600006098 Walker A/P-loop; other site 557600006099 ATP binding site [chemical binding]; other site 557600006100 Q-loop/lid; other site 557600006101 ABC transporter signature motif; other site 557600006102 Walker B; other site 557600006103 D-loop; other site 557600006104 H-loop/switch region; other site 557600006105 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 557600006106 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 557600006107 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 557600006108 Walker A/P-loop; other site 557600006109 ATP binding site [chemical binding]; other site 557600006110 Q-loop/lid; other site 557600006111 ABC transporter signature motif; other site 557600006112 Walker B; other site 557600006113 D-loop; other site 557600006114 H-loop/switch region; other site 557600006115 OstA-like protein; Region: OstA; cl00844 557600006116 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 557600006117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 557600006118 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 557600006119 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 557600006120 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 557600006121 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 557600006122 putative active site [active] 557600006123 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 557600006124 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 557600006125 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557600006126 active site 557600006127 HIGH motif; other site 557600006128 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557600006129 KMSKS motif; other site 557600006130 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 557600006131 tRNA binding surface [nucleotide binding]; other site 557600006132 anticodon binding site; other site 557600006133 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 557600006134 active site 557600006135 DNA binding site [nucleotide binding] 557600006136 Int/Topo IB signature motif; other site 557600006137 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 557600006138 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 557600006139 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 557600006140 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 557600006141 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; cl15403 557600006142 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 557600006143 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 557600006144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567; cl12082 557600006145 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 557600006146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 557600006147 Terminase-like family; Region: Terminase_6; pfam03237 557600006148 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 557600006149 Uncharacterized conserved protein (DUF2280); Region: DUF2280; cl02353 557600006150 Domain of unknown function (DUF305); Region: DUF305; cl15795 557600006151 Helix-turn-helix domains; Region: HTH; cl00088 557600006152 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557600006153 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 557600006154 putative substrate translocation pore; other site 557600006155 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 557600006156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006157 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 557600006158 DNA-binding site [nucleotide binding]; DNA binding site 557600006159 RNA-binding motif; other site 557600006160 LysE type translocator; Region: LysE; cl00565 557600006161 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 557600006162 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 557600006163 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 557600006164 non-specific DNA binding site [nucleotide binding]; other site 557600006165 salt bridge; other site 557600006166 Predicted transcriptional regulator [Transcription]; Region: COG2932 557600006167 sequence-specific DNA binding site [nucleotide binding]; other site 557600006168 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 557600006169 Catalytic site [active] 557600006170 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 557600006171 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 557600006172 generic binding surface II; other site 557600006173 generic binding surface I; other site 557600006174 LysE type translocator; Region: LysE; cl00565 557600006175 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 557600006176 dimerization interface [polypeptide binding]; other site 557600006177 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 557600006178 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 557600006179 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 557600006180 DNA binding residues [nucleotide binding] 557600006181 dimer interface [polypeptide binding]; other site 557600006182 copper binding site [ion binding]; other site 557600006183 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 557600006184 metal-binding site [ion binding] 557600006185 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 557600006186 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 557600006187 metal-binding site [ion binding] 557600006188 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557600006189 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 557600006190 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 557600006191 metal-binding site [ion binding] 557600006192 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557600006193 Helix-turn-helix domains; Region: HTH; cl00088 557600006194 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 557600006195 dimerizarion interface [polypeptide binding]; other site 557600006196 CrgA pocket; other site 557600006197 substrate binding pocket [chemical binding]; other site 557600006198 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 557600006199 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 557600006200 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 557600006201 putative alpha subunit interface [polypeptide binding]; other site 557600006202 putative active site [active] 557600006203 putative substrate binding site [chemical binding]; other site 557600006204 Fe binding site [ion binding]; other site 557600006205 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 557600006206 inter-subunit interface; other site 557600006207 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 557600006208 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 557600006209 catalytic loop [active] 557600006210 iron binding site [ion binding]; other site 557600006211 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 557600006212 FAD binding pocket [chemical binding]; other site 557600006213 FAD binding motif [chemical binding]; other site 557600006214 phosphate binding motif [ion binding]; other site 557600006215 beta-alpha-beta structure motif; other site 557600006216 NAD binding pocket [chemical binding]; other site 557600006217 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557600006218 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 557600006219 putative NAD(P) binding site [chemical binding]; other site 557600006220 active site 557600006221 benzoate transporter; Region: benE; TIGR00843 557600006222 Benzoate membrane transport protein; Region: BenE; pfam03594 557600006223 benzoate transport; Region: 2A0115; TIGR00895 557600006224 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 557600006225 putative substrate translocation pore; other site 557600006226 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 557600006227 putative substrate translocation pore; other site 557600006228 outer membrane porin, OprD family; Region: OprD; pfam03573 557600006229 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 557600006230 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 557600006231 dimer interface [polypeptide binding]; other site 557600006232 active site 557600006233 CoA binding pocket [chemical binding]; other site 557600006234 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 557600006235 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 557600006236 ATP binding site [chemical binding]; other site 557600006237 putative Mg++ binding site [ion binding]; other site 557600006238 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 557600006239 nucleotide binding region [chemical binding]; other site 557600006240 ATP-binding site [chemical binding]; other site 557600006241 Helicase associated domain (HA2); Region: HA2; cl04503 557600006242 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 557600006243 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 557600006244 peroxiredoxin; Region: AhpC; TIGR03137 557600006245 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 557600006246 dimer interface [polypeptide binding]; other site 557600006247 decamer (pentamer of dimers) interface [polypeptide binding]; other site 557600006248 catalytic triad [active] 557600006249 peroxidatic and resolving cysteines [active] 557600006250 KTSC domain; Region: KTSC; pfam13619 557600006251 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 557600006252 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 557600006253 S-adenosylmethionine binding site [chemical binding]; other site 557600006254 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 557600006255 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 557600006256 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 557600006257 catalytic residue [active] 557600006258 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 557600006259 catalytic residues [active] 557600006260 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600006261 glutathionine S-transferase; Provisional; Region: PRK10542 557600006262 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 557600006263 C-terminal domain interface [polypeptide binding]; other site 557600006264 GSH binding site (G-site) [chemical binding]; other site 557600006265 dimer interface [polypeptide binding]; other site 557600006266 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 557600006267 dimer interface [polypeptide binding]; other site 557600006268 N-terminal domain interface [polypeptide binding]; other site 557600006269 substrate binding pocket (H-site) [chemical binding]; other site 557600006270 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 557600006271 Lamin Tail Domain; Region: LTD; pfam00932 557600006272 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 557600006273 generic binding surface II; other site 557600006274 generic binding surface I; other site 557600006275 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 557600006276 putative active site [active] 557600006277 putative catalytic site [active] 557600006278 putative Mg binding site IVb [ion binding]; other site 557600006279 putative phosphate binding site [ion binding]; other site 557600006280 putative DNA binding site [nucleotide binding]; other site 557600006281 putative Mg binding site IVa [ion binding]; other site 557600006282 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 557600006283 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557600006284 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 557600006285 putative C-terminal domain interface [polypeptide binding]; other site 557600006286 putative GSH binding site (G-site) [chemical binding]; other site 557600006287 putative dimer interface [polypeptide binding]; other site 557600006288 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 557600006289 putative N-terminal domain interface [polypeptide binding]; other site 557600006290 putative dimer interface [polypeptide binding]; other site 557600006291 putative substrate binding pocket (H-site) [chemical binding]; other site 557600006292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006293 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 557600006294 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557600006295 ligand binding site [chemical binding]; other site 557600006296 dihydroorotase; Validated; Region: pyrC; PRK09357 557600006297 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 557600006298 active site 557600006299 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 557600006300 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557600006301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006302 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 557600006303 THUMP domain; Region: THUMP; cl12076 557600006304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006305 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 557600006306 Competence-damaged protein; Region: CinA; cl00666 557600006307 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 557600006308 Clp amino terminal domain; Region: Clp_N; pfam02861 557600006309 Clp amino terminal domain; Region: Clp_N; pfam02861 557600006310 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 557600006311 Walker A motif; other site 557600006312 ATP binding site [chemical binding]; other site 557600006313 Walker B motif; other site 557600006314 arginine finger; other site 557600006315 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 557600006316 Walker A motif; other site 557600006317 ATP binding site [chemical binding]; other site 557600006318 Walker B motif; other site 557600006319 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 557600006320 Peptidase family M23; Region: Peptidase_M23; pfam01551 557600006321 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 557600006322 Predicted acetyltransferase [General function prediction only]; Region: COG3153 557600006323 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600006324 Coenzyme A binding pocket [chemical binding]; other site 557600006325 OsmC-like protein; Region: OsmC; cl00767 557600006326 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 557600006327 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 557600006328 ligand binding site [chemical binding]; other site 557600006329 flexible hinge region; other site 557600006330 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 557600006331 putative switch regulator; other site 557600006332 non-specific DNA interactions [nucleotide binding]; other site 557600006333 DNA binding site [nucleotide binding] 557600006334 sequence specific DNA binding site [nucleotide binding]; other site 557600006335 putative cAMP binding site [chemical binding]; other site 557600006336 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 557600006337 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 557600006338 active site 557600006339 catalytic tetrad [active] 557600006340 Peptidase family M48; Region: Peptidase_M48; cl12018 557600006341 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 557600006342 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600006343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600006344 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 557600006345 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 557600006346 dimer interface [polypeptide binding]; other site 557600006347 motif 1; other site 557600006348 active site 557600006349 motif 2; other site 557600006350 motif 3; other site 557600006351 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 557600006352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006353 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 557600006354 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 557600006355 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 557600006356 motif 1; other site 557600006357 active site 557600006358 motif 2; other site 557600006359 motif 3; other site 557600006360 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 557600006361 DHHA1 domain; Region: DHHA1; pfam02272 557600006362 aspartate kinase; Reviewed; Region: PRK06635 557600006363 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 557600006364 putative nucleotide binding site [chemical binding]; other site 557600006365 putative catalytic residues [active] 557600006366 putative Mg ion binding site [ion binding]; other site 557600006367 putative aspartate binding site [chemical binding]; other site 557600006368 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 557600006369 putative allosteric regulatory site; other site 557600006370 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 557600006371 Global regulator protein family; Region: CsrA; cl00670 557600006372 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 557600006373 RNA/DNA hybrid binding site [nucleotide binding]; other site 557600006374 active site 557600006375 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 557600006376 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 557600006377 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 557600006378 active site 557600006379 purine riboside binding site [chemical binding]; other site 557600006380 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 557600006381 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557600006382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006383 classical (c) SDRs; Region: SDR_c; cd05233 557600006384 short chain dehydrogenase; Provisional; Region: PRK05650 557600006385 NAD(P) binding site [chemical binding]; other site 557600006386 active site 557600006387 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557600006388 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557600006389 Pirin-related protein [General function prediction only]; Region: COG1741 557600006390 Cupin domain; Region: Cupin_2; cl09118 557600006391 Helix-turn-helix domains; Region: HTH; cl00088 557600006392 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557600006393 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557600006394 classical (c) SDRs; Region: SDR_c; cd05233 557600006395 short chain dehydrogenase; Provisional; Region: PRK05650 557600006396 NAD(P) binding site [chemical binding]; other site 557600006397 active site 557600006398 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557600006399 Leucine carboxyl methyltransferase; Region: LCM; cl01306 557600006400 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600006401 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600006402 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600006403 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 557600006404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006405 classical (c) SDRs; Region: SDR_c; cd05233 557600006406 short chain dehydrogenase; Provisional; Region: PRK05650 557600006407 NAD(P) binding site [chemical binding]; other site 557600006408 active site 557600006409 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557600006410 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 557600006411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006412 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557600006413 outer membrane porin, OprD family; Region: OprD; pfam03573 557600006414 benzoate transport; Region: 2A0115; TIGR00895 557600006415 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 557600006416 putative substrate translocation pore; other site 557600006417 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 557600006418 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 557600006419 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 557600006420 iron-sulfur cluster [ion binding]; other site 557600006421 [2Fe-2S] cluster binding site [ion binding]; other site 557600006422 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 557600006423 alpha subunit interface [polypeptide binding]; other site 557600006424 active site 557600006425 substrate binding site [chemical binding]; other site 557600006426 Fe binding site [ion binding]; other site 557600006427 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557600006428 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 557600006429 FMN-binding pocket [chemical binding]; other site 557600006430 flavin binding motif; other site 557600006431 phosphate binding motif [ion binding]; other site 557600006432 beta-alpha-beta structure motif; other site 557600006433 NAD binding pocket [chemical binding]; other site 557600006434 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 557600006435 catalytic loop [active] 557600006436 iron binding site [ion binding]; other site 557600006437 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600006438 DNA-binding site [nucleotide binding]; DNA binding site 557600006439 FCD domain; Region: FCD; cl11656 557600006440 Helix-turn-helix domains; Region: HTH; cl00088 557600006441 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 557600006442 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 557600006443 putative substrate translocation pore; other site 557600006444 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 557600006445 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600006446 substrate binding site [chemical binding]; other site 557600006447 oxyanion hole (OAH) forming residues; other site 557600006448 trimer interface [polypeptide binding]; other site 557600006449 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600006450 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 557600006451 NAD(P) binding site [chemical binding]; other site 557600006452 catalytic residues [active] 557600006453 feruloyl-CoA synthase; Reviewed; Region: PRK08180 557600006454 AMP-binding enzyme; Region: AMP-binding; cl15778 557600006455 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600006456 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600006457 active site 557600006458 outer membrane porin, OprD family; Region: OprD; pfam03573 557600006459 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 557600006460 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 557600006461 CoenzymeA binding site [chemical binding]; other site 557600006462 subunit interaction site [polypeptide binding]; other site 557600006463 PHB binding site; other site 557600006464 Tannase and feruloyl esterase; Region: Tannase; pfam07519 557600006465 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557600006466 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600006467 DNA-binding site [nucleotide binding]; DNA binding site 557600006468 FCD domain; Region: FCD; cl11656 557600006469 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600006470 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 557600006471 dimer interface [polypeptide binding]; other site 557600006472 NADP binding site [chemical binding]; other site 557600006473 catalytic residues [active] 557600006474 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 557600006475 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557600006476 putative active site [active] 557600006477 catalytic residue [active] 557600006478 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 557600006479 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 557600006480 active site 557600006481 tetramer interface [polypeptide binding]; other site 557600006482 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 557600006483 D-galactonate transporter; Region: 2A0114; TIGR00893 557600006484 putative substrate translocation pore; other site 557600006485 galactarate dehydratase; Region: galactar-dH20; TIGR03248 557600006486 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 557600006487 EamA-like transporter family; Region: EamA; cl01037 557600006488 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557600006489 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600006490 Helix-turn-helix domain; Region: HTH_18; pfam12833 557600006491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600006492 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 557600006493 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 557600006494 NAD(P) binding site [chemical binding]; other site 557600006495 catalytic residues [active] 557600006496 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 557600006497 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 557600006498 Spore germination protein; Region: Spore_permease; cl15802 557600006499 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 557600006500 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 557600006501 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 557600006502 inhibitor-cofactor binding pocket; inhibition site 557600006503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600006504 catalytic residue [active] 557600006505 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557600006506 Helix-turn-helix domains; Region: HTH; cl00088 557600006507 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600006508 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 557600006509 tetrameric interface [polypeptide binding]; other site 557600006510 NAD binding site [chemical binding]; other site 557600006511 catalytic residues [active] 557600006512 substrate binding site [chemical binding]; other site 557600006513 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 557600006514 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 557600006515 Transcriptional regulators [Transcription]; Region: FadR; COG2186 557600006516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600006517 DNA-binding site [nucleotide binding]; DNA binding site 557600006518 FCD domain; Region: FCD; cl11656 557600006519 Cache domain; Region: Cache_1; pfam02743 557600006520 amino acid transporter; Region: 2A0306; TIGR00909 557600006521 Spore germination protein; Region: Spore_permease; cl15802 557600006522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006523 FAD dependent oxidoreductase; Region: DAO; pfam01266 557600006524 aromatic amino acid transporter; Provisional; Region: PRK10238 557600006525 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600006526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600006527 Family description; Region: UvrD_C_2; cl15862 557600006528 RHS Repeat; Region: RHS_repeat; cl11982 557600006529 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 557600006530 RHS Repeat; Region: RHS_repeat; cl11982 557600006531 RHS Repeat; Region: RHS_repeat; cl11982 557600006532 RHS Repeat; Region: RHS_repeat; cl11982 557600006533 RHS Repeat; Region: RHS_repeat; cl11982 557600006534 RHS protein; Region: RHS; pfam03527 557600006535 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 557600006536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 557600006537 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 557600006538 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 557600006539 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 557600006540 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 557600006541 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600006542 Helix-turn-helix domains; Region: HTH; cl00088 557600006543 NMT1-like family; Region: NMT1_2; cl15260 557600006544 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 557600006545 active site 557600006546 FMN binding site [chemical binding]; other site 557600006547 2,4-decadienoyl-CoA binding site; other site 557600006548 catalytic residue [active] 557600006549 4Fe-4S cluster binding site [ion binding]; other site 557600006550 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 557600006551 nitrite reductase [NAD(P)H], large subunit; Region: nitri_red_nirB; TIGR02374 557600006552 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 557600006553 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 557600006554 ANP binding site [chemical binding]; other site 557600006555 Substrate Binding Site II [chemical binding]; other site 557600006556 Substrate Binding Site I [chemical binding]; other site 557600006557 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557600006558 metal binding site [ion binding]; metal-binding site 557600006559 active site 557600006560 I-site; other site 557600006561 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 557600006562 active site 557600006563 substrate binding pocket [chemical binding]; other site 557600006564 dimer interface [polypeptide binding]; other site 557600006565 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 557600006566 dimer interface [polypeptide binding]; other site 557600006567 catalytic site [active] 557600006568 putative active site [active] 557600006569 putative substrate binding site [chemical binding]; other site 557600006570 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557600006571 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600006572 N-terminal plug; other site 557600006573 ligand-binding site [chemical binding]; other site 557600006574 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 557600006575 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 557600006576 putative active site [active] 557600006577 putative FMN binding site [chemical binding]; other site 557600006578 putative substrate binding site [chemical binding]; other site 557600006579 putative catalytic residue [active] 557600006580 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 557600006581 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 557600006582 Walker A/P-loop; other site 557600006583 ATP binding site [chemical binding]; other site 557600006584 Q-loop/lid; other site 557600006585 ABC transporter signature motif; other site 557600006586 Walker B; other site 557600006587 D-loop; other site 557600006588 H-loop/switch region; other site 557600006589 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 557600006590 Walker A/P-loop; other site 557600006591 ATP binding site [chemical binding]; other site 557600006592 Q-loop/lid; other site 557600006593 ABC transporter signature motif; other site 557600006594 Walker B; other site 557600006595 D-loop; other site 557600006596 H-loop/switch region; other site 557600006597 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 557600006598 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 557600006599 dimer interface [polypeptide binding]; other site 557600006600 conserved gate region; other site 557600006601 putative PBP binding loops; other site 557600006602 ABC-ATPase subunit interface; other site 557600006603 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 557600006604 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 557600006605 dimer interface [polypeptide binding]; other site 557600006606 conserved gate region; other site 557600006607 ABC-ATPase subunit interface; other site 557600006608 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 557600006609 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_14; cd08497 557600006610 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 557600006611 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 557600006612 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 557600006613 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557600006614 catalytic residue [active] 557600006615 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 557600006616 putative peptidoglycan binding site; other site 557600006617 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 557600006618 putative peptidoglycan binding site; other site 557600006619 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 557600006620 putative peptidoglycan binding site; other site 557600006621 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 557600006622 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 557600006623 putative peptidoglycan binding site; other site 557600006624 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 557600006625 putative peptidoglycan binding site; other site 557600006626 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 557600006627 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 557600006628 putative peptidoglycan binding site; other site 557600006629 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 557600006630 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 557600006631 putative peptidoglycan binding site; other site 557600006632 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 557600006633 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 557600006634 RNA/DNA hybrid binding site [nucleotide binding]; other site 557600006635 active site 557600006636 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 557600006637 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 557600006638 active site 557600006639 catalytic site [active] 557600006640 substrate binding site [chemical binding]; other site 557600006641 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 557600006642 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 557600006643 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 557600006644 putative NADH binding site [chemical binding]; other site 557600006645 putative active site [active] 557600006646 nudix motif; other site 557600006647 putative metal binding site [ion binding]; other site 557600006648 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600006649 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557600006650 substrate binding pocket [chemical binding]; other site 557600006651 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600006652 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 557600006653 BON domain; Region: BON; cl02771 557600006654 Restriction endonuclease; Region: Mrr_cat; cl00516 557600006655 Predicted methyltransferases [General function prediction only]; Region: COG0313 557600006656 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 557600006657 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 557600006658 Helix-turn-helix domains; Region: HTH; cl00088 557600006659 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600006660 dimerization interface [polypeptide binding]; other site 557600006661 LysE type translocator; Region: LysE; cl00565 557600006662 Cation efflux family; Region: Cation_efflux; cl00316 557600006663 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 557600006664 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 557600006665 DNA binding residues [nucleotide binding] 557600006666 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 557600006667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006669 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 557600006670 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 557600006671 active site 557600006672 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 557600006673 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 557600006674 Cell division protein ZapA; Region: ZapA; cl01146 557600006675 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 557600006676 active site 557600006677 Int/Topo IB signature motif; other site 557600006678 DNA binding site [nucleotide binding] 557600006679 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 557600006680 DNA-binding site [nucleotide binding]; DNA binding site 557600006681 RNA-binding motif; other site 557600006682 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 557600006683 PAAR motif; Region: PAAR_motif; cl15808 557600006684 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 557600006685 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 557600006686 tape measure domain; Region: tape_meas_nterm; TIGR02675 557600006687 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 557600006688 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 557600006689 HeH/LEM domain; Region: HeH; pfam12949 557600006690 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 557600006691 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; cl10351 557600006692 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 557600006693 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 557600006694 Terminase-like family; Region: Terminase_6; pfam03237 557600006695 Phage terminase large subunit; Region: Terminase_3; cl12054 557600006696 Uncharacterized conserved protein (DUF2280); Region: DUF2280; cl02353 557600006697 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 557600006698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006699 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 557600006700 non-specific DNA binding site [nucleotide binding]; other site 557600006701 salt bridge; other site 557600006702 sequence-specific DNA binding site [nucleotide binding]; other site 557600006703 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 557600006704 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 557600006705 Catalytic site [active] 557600006706 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 557600006707 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557600006708 Walker A motif; other site 557600006709 ATP binding site [chemical binding]; other site 557600006710 Walker B motif; other site 557600006711 arginine finger; other site 557600006712 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 557600006713 active site 557600006714 catalytic triad [active] 557600006715 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 557600006716 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 557600006717 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 557600006718 Found in ATP-dependent protease La (LON); Region: LON; smart00464 557600006719 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 557600006720 Walker A motif; other site 557600006721 ATP binding site [chemical binding]; other site 557600006722 Walker B motif; other site 557600006723 arginine finger; other site 557600006724 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 557600006725 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 557600006726 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 557600006727 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 557600006728 putative active site [active] 557600006729 metal binding site [ion binding]; metal-binding site 557600006730 META domain; Region: META; cl01245 557600006731 META domain; Region: META; cl01245 557600006732 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 557600006733 glutamate dehydrogenase; Provisional; Region: PRK09414 557600006734 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 557600006735 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 557600006736 NAD(P) binding site [chemical binding]; other site 557600006737 electron transport complex protein RnfB; Provisional; Region: PRK05113 557600006738 Putative Fe-S cluster; Region: FeS; pfam04060 557600006739 4Fe-4S binding domain; Region: Fer4; cl02805 557600006740 adenylate kinase; Reviewed; Region: adk; PRK00279 557600006741 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 557600006742 AMP-binding site [chemical binding]; other site 557600006743 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 557600006744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 557600006745 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 557600006746 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557600006747 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600006748 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557600006749 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 557600006750 S-adenosylmethionine binding site [chemical binding]; other site 557600006751 HupE / UreJ protein; Region: HupE_UreJ; cl01011 557600006752 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600006753 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 557600006754 UreF; Region: UreF; pfam01730 557600006755 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 557600006756 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 557600006757 dimer interface [polypeptide binding]; other site 557600006758 catalytic residues [active] 557600006759 urease subunit alpha; Reviewed; Region: ureC; PRK13207 557600006760 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 557600006761 subunit interactions [polypeptide binding]; other site 557600006762 active site 557600006763 flap region; other site 557600006764 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 557600006765 gamma-beta subunit interface [polypeptide binding]; other site 557600006766 alpha-beta subunit interface [polypeptide binding]; other site 557600006767 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 557600006768 alpha-gamma subunit interface [polypeptide binding]; other site 557600006769 beta-gamma subunit interface [polypeptide binding]; other site 557600006770 UreD urease accessory protein; Region: UreD; cl00530 557600006771 NlpE N-terminal domain; Region: NlpE; cl01138 557600006772 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 557600006773 tetramer interface [polypeptide binding]; other site 557600006774 active site 557600006775 Mg2+/Mn2+ binding site [ion binding]; other site 557600006776 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 557600006777 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600006778 Helix-turn-helix domains; Region: HTH; cl00088 557600006779 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 557600006780 substrate binding pocket [chemical binding]; other site 557600006781 dimerization interface [polypeptide binding]; other site 557600006782 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 557600006783 Domain of unknown function DUF21; Region: DUF21; pfam01595 557600006784 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 557600006785 Transporter associated domain; Region: CorC_HlyC; cl08393 557600006786 Citrate transporter; Region: CitMHS; pfam03600 557600006787 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 557600006788 transmembrane helices; other site 557600006789 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 557600006790 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 557600006791 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 557600006792 CysD dimerization site [polypeptide binding]; other site 557600006793 G1 box; other site 557600006794 putative GEF interaction site [polypeptide binding]; other site 557600006795 GTP/Mg2+ binding site [chemical binding]; other site 557600006796 Switch I region; other site 557600006797 G2 box; other site 557600006798 G3 box; other site 557600006799 Switch II region; other site 557600006800 G4 box; other site 557600006801 G5 box; other site 557600006802 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 557600006803 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 557600006804 Probable chromatin-remodeling complex ATPase chain; Provisional; Region: PLN03142 557600006805 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 557600006806 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 557600006807 Active Sites [active] 557600006808 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 557600006809 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 557600006810 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 557600006811 dimer interface [polypeptide binding]; other site 557600006812 putative anticodon binding site; other site 557600006813 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 557600006814 motif 1; other site 557600006815 active site 557600006816 motif 2; other site 557600006817 motif 3; other site 557600006818 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 557600006819 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 557600006820 putative hydrophobic ligand binding site [chemical binding]; other site 557600006821 Rubredoxin [Energy production and conversion]; Region: COG1773 557600006822 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 557600006823 iron binding site [ion binding]; other site 557600006824 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 557600006825 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600006826 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 557600006827 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600006828 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 557600006829 Helix-turn-helix domains; Region: HTH; cl00088 557600006830 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 557600006831 dimerization interface [polypeptide binding]; other site 557600006832 Sporulation related domain; Region: SPOR; cl10051 557600006833 polyphosphate kinase; Provisional; Region: PRK05443 557600006834 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 557600006835 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 557600006836 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 557600006837 putative active site [active] 557600006838 catalytic site [active] 557600006839 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 557600006840 putative active site [active] 557600006841 putative domain interface [polypeptide binding]; other site 557600006842 catalytic site [active] 557600006843 Transglycosylase; Region: Transgly; cl07896 557600006844 Rhomboid family; Region: Rhomboid; cl11446 557600006845 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 557600006846 FtsX-like permease family; Region: FtsX; cl15850 557600006847 FtsX-like permease family; Region: FtsX; cl15850 557600006848 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 557600006849 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 557600006850 Walker A/P-loop; other site 557600006851 ATP binding site [chemical binding]; other site 557600006852 Q-loop/lid; other site 557600006853 ABC transporter signature motif; other site 557600006854 Walker B; other site 557600006855 D-loop; other site 557600006856 H-loop/switch region; other site 557600006857 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 557600006858 active site 557600006859 catalytic triad [active] 557600006860 oxyanion hole [active] 557600006861 switch loop; other site 557600006862 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 557600006863 active site clefts [active] 557600006864 zinc binding site [ion binding]; other site 557600006865 dimer interface [polypeptide binding]; other site 557600006866 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 557600006867 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600006868 nucleophilic elbow; other site 557600006869 catalytic triad; other site 557600006870 outer membrane receptor FepA; Provisional; Region: PRK13524 557600006871 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600006872 N-terminal plug; other site 557600006873 ligand-binding site [chemical binding]; other site 557600006874 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 557600006875 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 557600006876 NifU-like domain; Region: NifU; cl00484 557600006877 Rhomboid family; Region: Rhomboid; cl11446 557600006878 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 557600006879 Sulfatase; Region: Sulfatase; cl10460 557600006880 Uncharacterized conserved protein [Function unknown]; Region: COG1262 557600006881 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 557600006882 Phosphate transporter family; Region: PHO4; cl00396 557600006883 Phosphate transporter family; Region: PHO4; cl00396 557600006884 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 557600006885 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 557600006886 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 557600006887 substrate binding pocket [chemical binding]; other site 557600006888 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 557600006889 B12 binding site [chemical binding]; other site 557600006890 cobalt ligand [ion binding]; other site 557600006891 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 557600006892 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 557600006893 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 557600006894 PYR/PP interface [polypeptide binding]; other site 557600006895 dimer interface [polypeptide binding]; other site 557600006896 TPP binding site [chemical binding]; other site 557600006897 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557600006898 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 557600006899 TPP-binding site [chemical binding]; other site 557600006900 dimer interface [polypeptide binding]; other site 557600006901 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 557600006902 D-galactonate transporter; Region: 2A0114; TIGR00893 557600006903 putative substrate translocation pore; other site 557600006904 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557600006905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006906 NAD(P) binding site [chemical binding]; other site 557600006907 active site 557600006908 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557600006909 Helix-turn-helix domains; Region: HTH; cl00088 557600006910 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 557600006911 dimerization interface [polypeptide binding]; other site 557600006912 substrate binding pocket [chemical binding]; other site 557600006913 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 557600006914 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 557600006915 active site 557600006916 catalytic residues [active] 557600006917 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 557600006918 putative substrate translocation pore; other site 557600006919 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600006920 Helix-turn-helix domain; Region: HTH_18; pfam12833 557600006921 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600006922 Glutaminase; Region: Glutaminase; cl00907 557600006923 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 557600006924 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 557600006925 active site 557600006926 catalytic residues [active] 557600006927 metal binding site [ion binding]; metal-binding site 557600006928 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 557600006929 metabolite-proton symporter; Region: 2A0106; TIGR00883 557600006930 putative substrate translocation pore; other site 557600006931 hypothetical protein; Provisional; Region: PRK07064 557600006932 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557600006933 PYR/PP interface [polypeptide binding]; other site 557600006934 dimer interface [polypeptide binding]; other site 557600006935 TPP binding site [chemical binding]; other site 557600006936 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 557600006937 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 557600006938 TPP-binding site [chemical binding]; other site 557600006939 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600006940 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 557600006941 NAD(P) binding site [chemical binding]; other site 557600006942 catalytic residues [active] 557600006943 L-aspartate dehydrogenase; Provisional; Region: PRK13303 557600006944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600006945 Domain of unknown function DUF108; Region: DUF108; pfam01958 557600006946 short chain dehydrogenase; Provisional; Region: PRK07062 557600006947 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 557600006948 putative NAD(P) binding site [chemical binding]; other site 557600006949 putative active site [active] 557600006950 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600006951 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600006952 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600006953 Cupin domain; Region: Cupin_2; cl09118 557600006954 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 557600006955 D-galactonate transporter; Region: 2A0114; TIGR00893 557600006956 putative substrate translocation pore; other site 557600006957 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 557600006958 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600006959 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 557600006960 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557600006961 putative active site [active] 557600006962 putative metal binding site [ion binding]; other site 557600006963 short chain dehydrogenase; Provisional; Region: PRK12939 557600006964 classical (c) SDRs; Region: SDR_c; cd05233 557600006965 NAD(P) binding site [chemical binding]; other site 557600006966 active site 557600006967 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 557600006968 [2Fe-2S] cluster binding site [ion binding]; other site 557600006969 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 557600006970 hydrophobic ligand binding site; other site 557600006971 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557600006972 Helix-turn-helix domains; Region: HTH; cl00088 557600006973 Bacterial transcriptional regulator; Region: IclR; pfam01614 557600006974 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 557600006975 enoyl-CoA hydratase; Provisional; Region: PRK06563 557600006976 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600006977 substrate binding site [chemical binding]; other site 557600006978 oxyanion hole (OAH) forming residues; other site 557600006979 trimer interface [polypeptide binding]; other site 557600006980 PgaD-like protein; Region: PgaD; cl14676 557600006981 N-glycosyltransferase; Provisional; Region: PRK11204 557600006982 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 557600006983 DXD motif; other site 557600006984 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 557600006985 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 557600006986 putative active site [active] 557600006987 putative metal binding site [ion binding]; other site 557600006988 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 557600006989 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 557600006990 YaeQ protein; Region: YaeQ; cl01913 557600006991 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 557600006992 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557600006993 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 557600006994 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600006995 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 557600006996 MarC family integral membrane protein; Region: MarC; cl00919 557600006997 BCCT family transporter; Region: BCCT; cl00569 557600006998 BCCT family transporter; Region: BCCT; cl00569 557600006999 transcriptional regulator BetI; Validated; Region: PRK00767 557600007000 Helix-turn-helix domains; Region: HTH; cl00088 557600007001 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 557600007002 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600007003 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 557600007004 tetrameric interface [polypeptide binding]; other site 557600007005 NAD binding site [chemical binding]; other site 557600007006 catalytic residues [active] 557600007007 choline dehydrogenase; Validated; Region: PRK02106 557600007008 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 557600007009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007010 Predicted dehydrogenase [General function prediction only]; Region: COG0579 557600007011 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 557600007012 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 557600007013 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 557600007014 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 557600007015 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600007016 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 557600007017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600007018 Helix-turn-helix domains; Region: HTH; cl00088 557600007019 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 557600007020 putative dimerization interface [polypeptide binding]; other site 557600007021 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557600007022 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 557600007023 inhibitor site; inhibition site 557600007024 active site 557600007025 dimer interface [polypeptide binding]; other site 557600007026 catalytic residue [active] 557600007027 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 557600007028 benzoate transport; Region: 2A0115; TIGR00895 557600007029 putative substrate translocation pore; other site 557600007030 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 557600007031 outer membrane porin, OprD family; Region: OprD; pfam03573 557600007032 outer membrane porin, OprD family; Region: OprD; pfam03573 557600007033 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557600007034 active site 557600007035 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 557600007036 Ligand Binding Site [chemical binding]; other site 557600007037 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 557600007038 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 557600007039 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 557600007040 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 557600007041 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 557600007042 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557600007043 putative substrate translocation pore; other site 557600007044 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 557600007045 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 557600007046 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 557600007047 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 557600007048 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 557600007049 CoenzymeA binding site [chemical binding]; other site 557600007050 subunit interaction site [polypeptide binding]; other site 557600007051 PHB binding site; other site 557600007052 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 557600007053 dimer interface [polypeptide binding]; other site 557600007054 allosteric magnesium binding site [ion binding]; other site 557600007055 active site 557600007056 aspartate-rich active site metal binding site; other site 557600007057 Schiff base residues; other site 557600007058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007059 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 557600007060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007061 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 557600007062 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557600007063 OsmC-like protein; Region: OsmC; cl00767 557600007064 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557600007065 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 557600007066 active site 557600007067 metal binding site [ion binding]; metal-binding site 557600007068 DNA binding site [nucleotide binding] 557600007069 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 557600007070 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600007071 Walker A/P-loop; other site 557600007072 ATP binding site [chemical binding]; other site 557600007073 Q-loop/lid; other site 557600007074 exonuclease subunit SbcC; Provisional; Region: PRK10246 557600007075 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 557600007076 ABC transporter signature motif; other site 557600007077 Walker B; other site 557600007078 D-loop; other site 557600007079 H-loop/switch region; other site 557600007080 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 557600007081 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557600007082 catalytic residue [active] 557600007083 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 557600007084 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 557600007085 Walker A motif; other site 557600007086 ATP binding site [chemical binding]; other site 557600007087 Walker B motif; other site 557600007088 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 557600007089 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600007090 Walker A motif; other site 557600007091 ATP binding site [chemical binding]; other site 557600007092 Walker B motif; other site 557600007093 ferric uptake regulator; Provisional; Region: fur; PRK09462 557600007094 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 557600007095 metal binding site 2 [ion binding]; metal-binding site 557600007096 putative DNA binding helix; other site 557600007097 metal binding site 1 [ion binding]; metal-binding site 557600007098 dimer interface [polypeptide binding]; other site 557600007099 structural Zn2+ binding site [ion binding]; other site 557600007100 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 557600007101 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 557600007102 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 557600007103 octamerization interface [polypeptide binding]; other site 557600007104 diferric-oxygen binding site [ion binding]; other site 557600007105 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 557600007106 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 557600007107 putative dimer interface [polypeptide binding]; other site 557600007108 putative active site [active] 557600007109 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600007110 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 557600007111 feedback inhibition sensing region; other site 557600007112 homohexameric interface [polypeptide binding]; other site 557600007113 nucleotide binding site [chemical binding]; other site 557600007114 N-acetyl-L-glutamate binding site [chemical binding]; other site 557600007115 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 557600007116 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 557600007117 active site 557600007118 substrate binding site [chemical binding]; other site 557600007119 metal binding site [ion binding]; metal-binding site 557600007120 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 557600007121 trimer interface [polypeptide binding]; other site 557600007122 active site 557600007123 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 557600007124 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600007125 Family description; Region: UvrD_C_2; cl15862 557600007126 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557600007127 ligand binding site [chemical binding]; other site 557600007128 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 557600007129 putative acyl-acceptor binding pocket; other site 557600007130 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 557600007131 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 557600007132 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 557600007133 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 557600007134 Switch I; other site 557600007135 Switch II; other site 557600007136 Septum formation topological specificity factor MinE; Region: MinE; cl00538 557600007137 LysE type translocator; Region: LysE; cl00565 557600007138 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 557600007139 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600007140 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 557600007141 thioredoxin reductase; Provisional; Region: PRK10262 557600007142 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600007143 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600007144 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600007145 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 557600007146 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600007147 Coenzyme A binding pocket [chemical binding]; other site 557600007148 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557600007149 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557600007150 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 557600007151 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 557600007152 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 557600007153 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 557600007154 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 557600007155 G1 box; other site 557600007156 GEF interaction site [polypeptide binding]; other site 557600007157 GTP/Mg2+ binding site [chemical binding]; other site 557600007158 Switch I region; other site 557600007159 G2 box; other site 557600007160 G3 box; other site 557600007161 Switch II region; other site 557600007162 G4 box; other site 557600007163 G5 box; other site 557600007164 elongation factor G; Reviewed; Region: PRK00007 557600007165 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 557600007166 G1 box; other site 557600007167 putative GEF interaction site [polypeptide binding]; other site 557600007168 GTP/Mg2+ binding site [chemical binding]; other site 557600007169 Switch I region; other site 557600007170 G2 box; other site 557600007171 G3 box; other site 557600007172 Switch II region; other site 557600007173 G4 box; other site 557600007174 G5 box; other site 557600007175 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 557600007176 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 557600007177 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 557600007178 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 557600007179 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 557600007180 S17 interaction site [polypeptide binding]; other site 557600007181 S8 interaction site; other site 557600007182 16S rRNA interaction site [nucleotide binding]; other site 557600007183 streptomycin interaction site [chemical binding]; other site 557600007184 23S rRNA interaction site [nucleotide binding]; other site 557600007185 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 557600007186 EcsC protein family; Region: EcsC; pfam12787 557600007187 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 557600007188 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 557600007189 dimer interface [polypeptide binding]; other site 557600007190 active site 557600007191 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 557600007192 Pirin-related protein [General function prediction only]; Region: COG1741 557600007193 Cupin domain; Region: Cupin_2; cl09118 557600007194 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 557600007195 NAD synthetase; Provisional; Region: PRK13981 557600007196 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 557600007197 multimer interface [polypeptide binding]; other site 557600007198 active site 557600007199 catalytic triad [active] 557600007200 protein interface 1 [polypeptide binding]; other site 557600007201 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 557600007202 homodimer interface [polypeptide binding]; other site 557600007203 NAD binding pocket [chemical binding]; other site 557600007204 ATP binding pocket [chemical binding]; other site 557600007205 Mg binding site [ion binding]; other site 557600007206 active-site loop [active] 557600007207 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 557600007208 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 557600007209 FMN-binding pocket [chemical binding]; other site 557600007210 flavin binding motif; other site 557600007211 phosphate binding motif [ion binding]; other site 557600007212 beta-alpha-beta structure motif; other site 557600007213 NAD binding pocket [chemical binding]; other site 557600007214 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 557600007215 catalytic loop [active] 557600007216 iron binding site [ion binding]; other site 557600007217 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600007218 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 557600007219 tetramerization interface [polypeptide binding]; other site 557600007220 NAD(P) binding site [chemical binding]; other site 557600007221 catalytic residues [active] 557600007222 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 557600007223 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 557600007224 [2Fe-2S] cluster binding site [ion binding]; other site 557600007225 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 557600007226 putative alpha subunit interface [polypeptide binding]; other site 557600007227 putative active site [active] 557600007228 putative substrate binding site [chemical binding]; other site 557600007229 Fe binding site [ion binding]; other site 557600007230 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600007231 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557600007232 substrate binding pocket [chemical binding]; other site 557600007233 BCCT family transporter; Region: BCCT; cl00569 557600007234 tartrate dehydrogenase; Provisional; Region: PRK08194 557600007235 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 557600007236 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 557600007237 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 557600007238 putative effector binding pocket; other site 557600007239 putative dimerization interface [polypeptide binding]; other site 557600007240 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 557600007241 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 557600007242 active site 557600007243 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 557600007244 SmpB-tmRNA interface; other site 557600007245 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600007246 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 557600007247 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 557600007248 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 557600007249 RNA binding surface [nucleotide binding]; other site 557600007250 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 557600007251 active site 557600007252 Outer membrane lipoprotein; Region: YfiO; pfam13525 557600007253 DNA primase, catalytic core; Region: dnaG; TIGR01391 557600007254 CHC2 zinc finger; Region: zf-CHC2; cl15369 557600007255 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 557600007256 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 557600007257 active site 557600007258 metal binding site [ion binding]; metal-binding site 557600007259 interdomain interaction site; other site 557600007260 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 557600007261 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 557600007262 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 557600007263 tRNA; other site 557600007264 putative tRNA binding site [nucleotide binding]; other site 557600007265 putative NADP binding site [chemical binding]; other site 557600007266 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 557600007267 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 557600007268 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 557600007269 binding surface 557600007270 TPR motif; other site 557600007271 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 557600007272 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 557600007273 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 557600007274 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557600007275 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 557600007276 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 557600007277 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 557600007278 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557600007279 active site 557600007280 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 557600007281 5S rRNA interface [nucleotide binding]; other site 557600007282 CTC domain interface [polypeptide binding]; other site 557600007283 L16 interface [polypeptide binding]; other site 557600007284 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 557600007285 putative active site [active] 557600007286 catalytic residue [active] 557600007287 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 557600007288 tetramerization interface [polypeptide binding]; other site 557600007289 active site 557600007290 GDYXXLXY protein; Region: GDYXXLXY; cl02066 557600007291 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 557600007292 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 557600007293 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 557600007294 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 557600007295 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 557600007296 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 557600007297 motif II; other site 557600007298 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 557600007299 dimer interface [polypeptide binding]; other site 557600007300 substrate binding site [chemical binding]; other site 557600007301 ATP binding site [chemical binding]; other site 557600007302 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 557600007303 BON domain; Region: BON; cl02771 557600007304 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 557600007305 putative peptidoglycan binding site; other site 557600007306 Phosphopantetheine attachment site; Region: PP-binding; cl09936 557600007307 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 557600007308 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 557600007309 NAD(P) binding site [chemical binding]; other site 557600007310 homotetramer interface [polypeptide binding]; other site 557600007311 homodimer interface [polypeptide binding]; other site 557600007312 active site 557600007313 Acyl transferase domain; Region: Acyl_transf_1; cl08282 557600007314 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 557600007315 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 557600007316 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 557600007317 Protein of unknown function, DUF462; Region: DUF462; cl01190 557600007318 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 557600007319 ScpA/B protein; Region: ScpA_ScpB; cl00598 557600007320 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 557600007321 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 557600007322 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 557600007323 RNA binding surface [nucleotide binding]; other site 557600007324 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 557600007325 probable active site [active] 557600007326 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 557600007327 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 557600007328 S-adenosylmethionine binding site [chemical binding]; other site 557600007329 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 557600007330 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 557600007331 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557600007332 catalytic residue [active] 557600007333 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 557600007334 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 557600007335 inhibitor-cofactor binding pocket; inhibition site 557600007336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600007337 catalytic residue [active] 557600007338 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 557600007339 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 557600007340 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 557600007341 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 557600007342 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 557600007343 active site 557600007344 homotetramer interface [polypeptide binding]; other site 557600007345 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 557600007346 putative substrate translocation pore; other site 557600007347 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 557600007348 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 557600007349 heme binding site [chemical binding]; other site 557600007350 ferroxidase pore; other site 557600007351 ferroxidase diiron center [ion binding]; other site 557600007352 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 557600007353 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 557600007354 nucleotide binding pocket [chemical binding]; other site 557600007355 K-X-D-G motif; other site 557600007356 catalytic site [active] 557600007357 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 557600007358 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 557600007359 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 557600007360 Dimer interface [polypeptide binding]; other site 557600007361 BRCT sequence motif; other site 557600007362 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 557600007363 FtsZ protein binding site [polypeptide binding]; other site 557600007364 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 557600007365 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 557600007366 Walker A/P-loop; other site 557600007367 ATP binding site [chemical binding]; other site 557600007368 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 557600007369 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 557600007370 ABC transporter signature motif; other site 557600007371 Walker B; other site 557600007372 D-loop; other site 557600007373 H-loop/switch region; other site 557600007374 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557600007375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600007376 DNA-binding site [nucleotide binding]; DNA binding site 557600007377 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 557600007378 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 557600007379 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 557600007380 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 557600007381 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 557600007382 Type III pantothenate kinase; Region: Pan_kinase; cl09130 557600007383 signal recognition particle protein; Provisional; Region: PRK10867 557600007384 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 557600007385 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 557600007386 GTP binding site [chemical binding]; other site 557600007387 Signal peptide binding domain; Region: SRP_SPB; pfam02978 557600007388 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 557600007389 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 557600007390 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 557600007391 FMN binding site [chemical binding]; other site 557600007392 active site 557600007393 catalytic residues [active] 557600007394 substrate binding site [chemical binding]; other site 557600007395 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 557600007396 trimer interface [polypeptide binding]; other site 557600007397 active site 557600007398 LysE type translocator; Region: LysE; cl00565 557600007399 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 557600007400 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 557600007401 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 557600007402 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 557600007403 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 557600007404 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 557600007405 active site 557600007406 HIGH motif; other site 557600007407 KMSKS motif; other site 557600007408 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 557600007409 tRNA binding surface [nucleotide binding]; other site 557600007410 anticodon binding site; other site 557600007411 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 557600007412 dimer interface [polypeptide binding]; other site 557600007413 putative tRNA-binding site [nucleotide binding]; other site 557600007414 LysE type translocator; Region: LysE; cl00565 557600007415 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600007416 Helix-turn-helix domains; Region: HTH; cl00088 557600007417 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 557600007418 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557600007419 putative substrate translocation pore; other site 557600007420 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 557600007421 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 557600007422 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 557600007423 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 557600007424 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 557600007425 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557600007426 catalytic residue [active] 557600007427 HI0933-like protein; Region: HI0933_like; pfam03486 557600007428 Conserved TM helix; Region: TM_helix; pfam05552 557600007429 Conserved TM helix; Region: TM_helix; pfam05552 557600007430 Conserved TM helix; Region: TM_helix; pfam05552 557600007431 Conserved TM helix; Region: TM_helix; pfam05552 557600007432 ferredoxin-NADP reductase; Provisional; Region: PRK10926 557600007433 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 557600007434 FAD binding pocket [chemical binding]; other site 557600007435 FAD binding motif [chemical binding]; other site 557600007436 phosphate binding motif [ion binding]; other site 557600007437 beta-alpha-beta structure motif; other site 557600007438 NAD binding pocket [chemical binding]; other site 557600007439 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 557600007440 Helix-turn-helix domains; Region: HTH; cl00088 557600007441 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 557600007442 putative dimerization interface [polypeptide binding]; other site 557600007443 Excalibur calcium-binding domain; Region: Excalibur; cl05460 557600007444 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 557600007445 DNA-binding site [nucleotide binding]; DNA binding site 557600007446 RNA-binding motif; other site 557600007447 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557600007448 active site 557600007449 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 557600007450 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 557600007451 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 557600007452 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 557600007453 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 557600007454 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 557600007455 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 557600007456 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 557600007457 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 557600007458 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 557600007459 4Fe-4S binding domain; Region: Fer4; cl02805 557600007460 4Fe-4S binding domain; Region: Fer4; cl02805 557600007461 NADH dehydrogenase; Region: NADHdh; cl00469 557600007462 NADH dehydrogenase subunit G; Validated; Region: PRK08166 557600007463 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 557600007464 catalytic loop [active] 557600007465 iron binding site [ion binding]; other site 557600007466 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 557600007467 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 557600007468 [4Fe-4S] binding site [ion binding]; other site 557600007469 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 557600007470 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 557600007471 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 557600007472 SLBB domain; Region: SLBB; pfam10531 557600007473 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 557600007474 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 557600007475 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 557600007476 putative dimer interface [polypeptide binding]; other site 557600007477 [2Fe-2S] cluster binding site [ion binding]; other site 557600007478 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 557600007479 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 557600007480 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 557600007481 NADH dehydrogenase subunit B; Validated; Region: PRK06411 557600007482 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 557600007483 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 557600007484 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557600007485 metal binding site [ion binding]; metal-binding site 557600007486 active site 557600007487 I-site; other site 557600007488 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 557600007489 dimerization interface [polypeptide binding]; other site 557600007490 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 557600007491 dimer interface [polypeptide binding]; other site 557600007492 phosphorylation site [posttranslational modification] 557600007493 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 557600007494 ATP binding site [chemical binding]; other site 557600007495 Mg2+ binding site [ion binding]; other site 557600007496 G-X-G motif; other site 557600007497 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 557600007498 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 557600007499 active site 557600007500 phosphorylation site [posttranslational modification] 557600007501 intermolecular recognition site; other site 557600007502 dimerization interface [polypeptide binding]; other site 557600007503 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 557600007504 DNA binding site [nucleotide binding] 557600007505 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 557600007506 ATP cone domain; Region: ATP-cone; pfam03477 557600007507 Class I ribonucleotide reductase; Region: RNR_I; cd01679 557600007508 active site 557600007509 dimer interface [polypeptide binding]; other site 557600007510 catalytic residues [active] 557600007511 effector binding site; other site 557600007512 R2 peptide binding site; other site 557600007513 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 557600007514 dimer interface [polypeptide binding]; other site 557600007515 putative radical transfer pathway; other site 557600007516 diiron center [ion binding]; other site 557600007517 tyrosyl radical; other site 557600007518 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 557600007519 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 557600007520 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600007521 Helix-turn-helix domains; Region: HTH; cl00088 557600007522 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600007523 dimerization interface [polypeptide binding]; other site 557600007524 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600007525 Helix-turn-helix domains; Region: HTH; cl00088 557600007526 Flavin Reductases; Region: FlaRed; cl00801 557600007527 methionine synthase; Provisional; Region: PRK01207 557600007528 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 557600007529 substrate binding site [chemical binding]; other site 557600007530 THF binding site; other site 557600007531 zinc-binding site [ion binding]; other site 557600007532 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 557600007533 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557600007534 Helix-turn-helix domains; Region: HTH; cl00088 557600007535 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600007536 dimerization interface [polypeptide binding]; other site 557600007537 LysE type translocator; Region: LysE; cl00565 557600007538 Fatty acid desaturase; Region: FA_desaturase; pfam00487 557600007539 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600007540 SurA N-terminal domain; Region: SurA_N_3; cl07813 557600007541 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600007542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600007543 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 557600007544 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 557600007545 metal binding site [ion binding]; metal-binding site 557600007546 putative dimer interface [polypeptide binding]; other site 557600007547 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 557600007548 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600007549 Helix-turn-helix domains; Region: HTH; cl00088 557600007550 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 557600007551 putative dimerization interface [polypeptide binding]; other site 557600007552 citrate-proton symporter; Provisional; Region: PRK15075 557600007553 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 557600007554 putative substrate translocation pore; other site 557600007555 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557600007556 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600007557 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 557600007558 Helix-turn-helix domains; Region: HTH; cl00088 557600007559 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 557600007560 putative dimerization interface [polypeptide binding]; other site 557600007561 tricarballylate dehydrogenase; Validated; Region: PRK08274 557600007562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007563 tricarballylate utilization protein B; Provisional; Region: PRK15033 557600007564 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 557600007565 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 557600007566 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557600007567 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 557600007568 benzoate transport; Region: 2A0115; TIGR00895 557600007569 putative substrate translocation pore; other site 557600007570 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 557600007571 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600007572 FAD binding site [chemical binding]; other site 557600007573 substrate binding pocket [chemical binding]; other site 557600007574 catalytic base [active] 557600007575 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557600007576 Helix-turn-helix domains; Region: HTH; cl00088 557600007577 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600007578 dimerization interface [polypeptide binding]; other site 557600007579 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557600007580 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 557600007581 putative NAD(P) binding site [chemical binding]; other site 557600007582 catalytic Zn binding site [ion binding]; other site 557600007583 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 557600007584 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 557600007585 active site 557600007586 purine riboside binding site [chemical binding]; other site 557600007587 Quinolinate synthetase A protein; Region: NadA; cl00420 557600007588 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 557600007589 heterotetramer interface [polypeptide binding]; other site 557600007590 active site pocket [active] 557600007591 cleavage site 557600007592 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 557600007593 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 557600007594 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 557600007595 DNA binding site [nucleotide binding] 557600007596 active site 557600007597 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 557600007598 Cation efflux family; Region: Cation_efflux; cl00316 557600007599 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 557600007600 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 557600007601 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 557600007602 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 557600007603 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 557600007604 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 557600007605 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 557600007606 active site 557600007607 motif I; other site 557600007608 motif II; other site 557600007609 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 557600007610 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 557600007611 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 557600007612 substrate binding site [chemical binding]; other site 557600007613 hexamer interface [polypeptide binding]; other site 557600007614 metal binding site [ion binding]; metal-binding site 557600007615 Predicted esterase [General function prediction only]; Region: COG0627 557600007616 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600007617 Peptidase C13 family; Region: Peptidase_C13; cl02159 557600007618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007619 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 557600007620 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 557600007621 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 557600007622 trimer interface [polypeptide binding]; other site 557600007623 putative metal binding site [ion binding]; other site 557600007624 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 557600007625 putative active site [active] 557600007626 putative CoA binding site [chemical binding]; other site 557600007627 nudix motif; other site 557600007628 metal binding site [ion binding]; metal-binding site 557600007629 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 557600007630 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 557600007631 nudix motif; other site 557600007632 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 557600007633 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK11907 557600007634 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39G; cd02423 557600007635 putative active site [active] 557600007636 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 557600007637 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 557600007638 chorismate binding enzyme; Region: Chorismate_bind; cl10555 557600007639 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 557600007640 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 557600007641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600007642 homodimer interface [polypeptide binding]; other site 557600007643 catalytic residue [active] 557600007644 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 557600007645 histidinol dehydrogenase; Region: hisD; TIGR00069 557600007646 NAD binding site [chemical binding]; other site 557600007647 dimerization interface [polypeptide binding]; other site 557600007648 product binding site; other site 557600007649 substrate binding site [chemical binding]; other site 557600007650 zinc binding site [ion binding]; other site 557600007651 catalytic residues [active] 557600007652 ATP phosphoribosyltransferase; Region: HisG; cl15266 557600007653 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 557600007654 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 557600007655 hinge; other site 557600007656 active site 557600007657 BolA-like protein; Region: BolA; cl00386 557600007658 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 557600007659 30S subunit binding site; other site 557600007660 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 557600007661 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 557600007662 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 557600007663 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 557600007664 VacJ like lipoprotein; Region: VacJ; cl01073 557600007665 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 557600007666 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 557600007667 anti sigma factor interaction site; other site 557600007668 regulatory phosphorylation site [posttranslational modification]; other site 557600007669 Predicted amidohydrolase [General function prediction only]; Region: COG0388 557600007670 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 557600007671 putative active site [active] 557600007672 catalytic triad [active] 557600007673 dimer interface [polypeptide binding]; other site 557600007674 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557600007675 Helix-turn-helix domains; Region: HTH; cl00088 557600007676 OsmC-like protein; Region: OsmC; cl00767 557600007677 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 557600007678 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 557600007679 Walker A motif; other site 557600007680 ATP binding site [chemical binding]; other site 557600007681 Walker B motif; other site 557600007682 Protein of unknown function (DUF432); Region: DUF432; cl01027 557600007683 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557600007684 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 557600007685 DNA polymerase I; Provisional; Region: PRK05755 557600007686 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 557600007687 active site 557600007688 metal binding site 1 [ion binding]; metal-binding site 557600007689 putative 5' ssDNA interaction site; other site 557600007690 metal binding site 3; metal-binding site 557600007691 metal binding site 2 [ion binding]; metal-binding site 557600007692 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 557600007693 putative DNA binding site [nucleotide binding]; other site 557600007694 putative metal binding site [ion binding]; other site 557600007695 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 557600007696 active site 557600007697 catalytic site [active] 557600007698 substrate binding site [chemical binding]; other site 557600007699 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 557600007700 active site 557600007701 DNA binding site [nucleotide binding] 557600007702 catalytic site [active] 557600007703 YGGT family; Region: YGGT; cl00508 557600007704 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 557600007705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007706 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 557600007707 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 557600007708 TilS substrate binding domain; Region: TilS; pfam09179 557600007709 B3/4 domain; Region: B3_4; cl11458 557600007710 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 557600007711 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 557600007712 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 557600007713 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 557600007714 catalytic residues [active] 557600007715 transcription termination factor Rho; Provisional; Region: rho; PRK09376 557600007716 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 557600007717 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 557600007718 RNA binding site [nucleotide binding]; other site 557600007719 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 557600007720 multimer interface [polypeptide binding]; other site 557600007721 Walker A motif; other site 557600007722 ATP binding site [chemical binding]; other site 557600007723 Walker B motif; other site 557600007724 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 557600007725 IHF dimer interface [polypeptide binding]; other site 557600007726 IHF - DNA interface [nucleotide binding]; other site 557600007727 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 557600007728 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 557600007729 putative tRNA-binding site [nucleotide binding]; other site 557600007730 B3/4 domain; Region: B3_4; cl11458 557600007731 tRNA synthetase B5 domain; Region: B5; cl08394 557600007732 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 557600007733 dimer interface [polypeptide binding]; other site 557600007734 motif 1; other site 557600007735 motif 3; other site 557600007736 motif 2; other site 557600007737 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 557600007738 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 557600007739 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 557600007740 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 557600007741 dimer interface [polypeptide binding]; other site 557600007742 motif 1; other site 557600007743 active site 557600007744 motif 2; other site 557600007745 motif 3; other site 557600007746 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 557600007747 23S rRNA binding site [nucleotide binding]; other site 557600007748 L21 binding site [polypeptide binding]; other site 557600007749 L13 binding site [polypeptide binding]; other site 557600007750 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 557600007751 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 557600007752 putative substrate translocation pore; other site 557600007753 H+ Antiporter protein; Region: 2A0121; TIGR00900 557600007754 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 557600007755 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 557600007756 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 557600007757 C-terminal domain interface [polypeptide binding]; other site 557600007758 GSH binding site (G-site) [chemical binding]; other site 557600007759 dimer interface [polypeptide binding]; other site 557600007760 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 557600007761 N-terminal domain interface [polypeptide binding]; other site 557600007762 putative dimer interface [polypeptide binding]; other site 557600007763 active site 557600007764 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 557600007765 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 557600007766 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 557600007767 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 557600007768 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 557600007769 active site 557600007770 dimer interface [polypeptide binding]; other site 557600007771 motif 1; other site 557600007772 motif 2; other site 557600007773 motif 3; other site 557600007774 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 557600007775 anticodon binding site; other site 557600007776 acyl-CoA synthetase; Validated; Region: PRK08162 557600007777 AMP-binding enzyme; Region: AMP-binding; cl15778 557600007778 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600007779 Protein of unknown function (DUF615); Region: DUF615; cl01147 557600007780 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 557600007781 dimerization domain swap beta strand [polypeptide binding]; other site 557600007782 regulatory protein interface [polypeptide binding]; other site 557600007783 active site 557600007784 regulatory phosphorylation site [posttranslational modification]; other site 557600007785 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 557600007786 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 557600007787 pantoate--beta-alanine ligase; Region: panC; TIGR00018 557600007788 Pantoate-beta-alanine ligase; Region: PanC; cd00560 557600007789 active site 557600007790 ATP-binding site [chemical binding]; other site 557600007791 pantoate-binding site; other site 557600007792 HXXH motif; other site 557600007793 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 557600007794 oligomerization interface [polypeptide binding]; other site 557600007795 active site 557600007796 metal binding site [ion binding]; metal-binding site 557600007797 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 557600007798 catalytic center binding site [active] 557600007799 ATP binding site [chemical binding]; other site 557600007800 poly(A) polymerase; Region: pcnB; TIGR01942 557600007801 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 557600007802 active site 557600007803 NTP binding site [chemical binding]; other site 557600007804 metal binding triad [ion binding]; metal-binding site 557600007805 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 557600007806 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 557600007807 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 557600007808 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 557600007809 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 557600007810 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 557600007811 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 557600007812 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557600007813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007814 NAD(P) binding site [chemical binding]; other site 557600007815 active site 557600007816 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 557600007817 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 557600007818 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557600007819 synthetase active site [active] 557600007820 NTP binding site [chemical binding]; other site 557600007821 metal binding site [ion binding]; metal-binding site 557600007822 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 557600007823 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 557600007824 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 557600007825 TRAM domain; Region: TRAM; cl01282 557600007826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007827 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 557600007828 S-adenosylmethionine binding site [chemical binding]; other site 557600007829 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 557600007830 active site 557600007831 catalytic site [active] 557600007832 substrate binding site [chemical binding]; other site 557600007833 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 557600007834 cysteine synthase B; Region: cysM; TIGR01138 557600007835 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 557600007836 dimer interface [polypeptide binding]; other site 557600007837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600007838 catalytic residue [active] 557600007839 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 557600007840 dimer interface [polypeptide binding]; other site 557600007841 phosphorylation site [posttranslational modification] 557600007842 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 557600007843 ATP binding site [chemical binding]; other site 557600007844 Mg2+ binding site [ion binding]; other site 557600007845 G-X-G motif; other site 557600007846 Response regulator receiver domain; Region: Response_reg; pfam00072 557600007847 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 557600007848 active site 557600007849 phosphorylation site [posttranslational modification] 557600007850 intermolecular recognition site; other site 557600007851 dimerization interface [polypeptide binding]; other site 557600007852 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 557600007853 enoyl-CoA hydratase; Provisional; Region: PRK07509 557600007854 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600007855 substrate binding site [chemical binding]; other site 557600007856 oxyanion hole (OAH) forming residues; other site 557600007857 trimer interface [polypeptide binding]; other site 557600007858 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 557600007859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007860 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 557600007861 Oligomerisation domain; Region: Oligomerisation; cl00519 557600007862 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 557600007863 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 557600007864 putative NAD(P) binding site [chemical binding]; other site 557600007865 active site 557600007866 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 557600007867 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 557600007868 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 557600007869 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 557600007870 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 557600007871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007872 EamA-like transporter family; Region: EamA; cl01037 557600007873 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557600007874 EamA-like transporter family; Region: EamA; cl01037 557600007875 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 557600007876 homotrimer interaction site [polypeptide binding]; other site 557600007877 putative active site [active] 557600007878 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 557600007879 putative substrate translocation pore; other site 557600007880 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 557600007881 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 557600007882 FMN binding site [chemical binding]; other site 557600007883 active site 557600007884 catalytic residues [active] 557600007885 substrate binding site [chemical binding]; other site 557600007886 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557600007887 Helix-turn-helix domains; Region: HTH; cl00088 557600007888 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 557600007889 dimerization interface [polypeptide binding]; other site 557600007890 substrate binding pocket [chemical binding]; other site 557600007891 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 557600007892 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 557600007893 putative ATP binding site [chemical binding]; other site 557600007894 putative substrate interface [chemical binding]; other site 557600007895 aconitate hydratase; Validated; Region: PRK09277 557600007896 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 557600007897 substrate binding site [chemical binding]; other site 557600007898 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 557600007899 ligand binding site [chemical binding]; other site 557600007900 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 557600007901 substrate binding site [chemical binding]; other site 557600007902 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557600007903 active site 557600007904 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 557600007905 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 557600007906 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 557600007907 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 557600007908 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 557600007909 G1 box; other site 557600007910 putative GEF interaction site [polypeptide binding]; other site 557600007911 GTP/Mg2+ binding site [chemical binding]; other site 557600007912 Switch I region; other site 557600007913 G2 box; other site 557600007914 G3 box; other site 557600007915 Switch II region; other site 557600007916 G4 box; other site 557600007917 G5 box; other site 557600007918 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 557600007919 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600007920 Helix-turn-helix domains; Region: HTH; cl00088 557600007921 Helix-turn-helix domains; Region: HTH; cl00088 557600007922 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 557600007923 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557600007924 metal binding site [ion binding]; metal-binding site 557600007925 active site 557600007926 I-site; other site 557600007927 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 557600007928 ketol-acid reductoisomerase; Provisional; Region: PRK05479 557600007929 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600007930 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 557600007931 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 557600007932 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 557600007933 putative valine binding site [chemical binding]; other site 557600007934 dimer interface [polypeptide binding]; other site 557600007935 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 557600007936 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 557600007937 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557600007938 PYR/PP interface [polypeptide binding]; other site 557600007939 dimer interface [polypeptide binding]; other site 557600007940 TPP binding site [chemical binding]; other site 557600007941 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 557600007942 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 557600007943 TPP-binding site [chemical binding]; other site 557600007944 dimer interface [polypeptide binding]; other site 557600007945 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 557600007946 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 557600007947 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 557600007948 HIGH motif; other site 557600007949 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557600007950 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557600007951 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557600007952 active site 557600007953 KMSKS motif; other site 557600007954 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 557600007955 tRNA binding surface [nucleotide binding]; other site 557600007956 Lipopolysaccharide-assembly; Region: LptE; cl01125 557600007957 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 557600007958 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 557600007959 macrolide transporter subunit MacA; Provisional; Region: PRK11578 557600007960 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 557600007961 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 557600007962 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 557600007963 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 557600007964 Walker A/P-loop; other site 557600007965 ATP binding site [chemical binding]; other site 557600007966 Q-loop/lid; other site 557600007967 ABC transporter signature motif; other site 557600007968 Walker B; other site 557600007969 D-loop; other site 557600007970 H-loop/switch region; other site 557600007971 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557600007972 FtsX-like permease family; Region: FtsX; cl15850 557600007973 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 557600007974 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 557600007975 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 557600007976 NAD binding site [chemical binding]; other site 557600007977 homotetramer interface [polypeptide binding]; other site 557600007978 homodimer interface [polypeptide binding]; other site 557600007979 substrate binding site [chemical binding]; other site 557600007980 active site 557600007981 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 557600007982 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 557600007983 catalytic site [active] 557600007984 putative active site [active] 557600007985 putative substrate binding site [chemical binding]; other site 557600007986 dimer interface [polypeptide binding]; other site 557600007987 GTPase RsgA; Reviewed; Region: PRK12288 557600007988 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 557600007989 RNA binding site [nucleotide binding]; other site 557600007990 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 557600007991 GTPase/Zn-binding domain interface [polypeptide binding]; other site 557600007992 GTP/Mg2+ binding site [chemical binding]; other site 557600007993 G4 box; other site 557600007994 G5 box; other site 557600007995 G1 box; other site 557600007996 Switch I region; other site 557600007997 G2 box; other site 557600007998 G3 box; other site 557600007999 Switch II region; other site 557600008000 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 557600008001 active site residue [active] 557600008002 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 557600008003 GSH binding site [chemical binding]; other site 557600008004 catalytic residues [active] 557600008005 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 557600008006 SecA binding site; other site 557600008007 Preprotein binding site; other site 557600008008 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 557600008009 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 557600008010 GTP-binding protein Der; Reviewed; Region: PRK00093 557600008011 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 557600008012 G1 box; other site 557600008013 GTP/Mg2+ binding site [chemical binding]; other site 557600008014 Switch I region; other site 557600008015 G2 box; other site 557600008016 Switch II region; other site 557600008017 G3 box; other site 557600008018 G4 box; other site 557600008019 G5 box; other site 557600008020 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 557600008021 G1 box; other site 557600008022 GTP/Mg2+ binding site [chemical binding]; other site 557600008023 Switch I region; other site 557600008024 G2 box; other site 557600008025 G3 box; other site 557600008026 Switch II region; other site 557600008027 G4 box; other site 557600008028 G5 box; other site 557600008029 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 557600008030 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 557600008031 Trp docking motif [polypeptide binding]; other site 557600008032 active site 557600008033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 557600008034 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 557600008035 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 557600008036 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 557600008037 dimer interface [polypeptide binding]; other site 557600008038 motif 1; other site 557600008039 active site 557600008040 motif 2; other site 557600008041 motif 3; other site 557600008042 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 557600008043 anticodon binding site; other site 557600008044 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 557600008045 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 557600008046 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 557600008047 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 557600008048 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 557600008049 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 557600008050 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 557600008051 TPR motif; other site 557600008052 binding surface 557600008053 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 557600008054 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 557600008055 FeS/SAM binding site; other site 557600008056 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 557600008057 active site 557600008058 multimer interface [polypeptide binding]; other site 557600008059 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 557600008060 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 557600008061 active site 557600008062 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557600008063 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 557600008064 carboxy-terminal protease; Provisional; Region: PRK11186 557600008065 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 557600008066 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 557600008067 protein binding site [polypeptide binding]; other site 557600008068 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 557600008069 Catalytic dyad [active] 557600008070 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 557600008071 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 557600008072 Leucine carboxyl methyltransferase; Region: LCM; cl01306 557600008073 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600008074 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 557600008075 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 557600008076 putative catalytic cysteine [active] 557600008077 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 557600008078 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600008079 tetrameric interface [polypeptide binding]; other site 557600008080 activator binding site; other site 557600008081 NADP binding site [chemical binding]; other site 557600008082 substrate binding site [chemical binding]; other site 557600008083 catalytic residues [active] 557600008084 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 557600008085 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 557600008086 ATP-binding site [chemical binding]; other site 557600008087 Gluconate-6-phosphate binding site [chemical binding]; other site 557600008088 GntP family permease; Region: GntP_permease; pfam02447 557600008089 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 557600008090 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 557600008091 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 557600008092 active site 557600008093 intersubunit interface [polypeptide binding]; other site 557600008094 catalytic residue [active] 557600008095 Dehydratase family; Region: ILVD_EDD; cl00340 557600008096 6-phosphogluconate dehydratase; Region: edd; TIGR01196 557600008097 Acetokinase family; Region: Acetate_kinase; cl01029 557600008098 propionate/acetate kinase; Provisional; Region: PRK12379 557600008099 phosphate acetyltransferase; Reviewed; Region: PRK05632 557600008100 DRTGG domain; Region: DRTGG; cl12147 557600008101 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 557600008102 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 557600008103 Fumarase C-terminus; Region: Fumerase_C; cl00795 557600008104 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 557600008105 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 557600008106 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 557600008107 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 557600008108 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 557600008109 Walker A motif; other site 557600008110 ATP binding site [chemical binding]; other site 557600008111 Walker B motif; other site 557600008112 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 557600008113 Clp protease; Region: CLP_protease; pfam00574 557600008114 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 557600008115 oligomer interface [polypeptide binding]; other site 557600008116 active site residues [active] 557600008117 trigger factor; Provisional; Region: tig; PRK01490 557600008118 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 557600008119 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 557600008120 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 557600008121 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600008122 N-terminal plug; other site 557600008123 ligand-binding site [chemical binding]; other site 557600008124 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 557600008125 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 557600008126 2-isopropylmalate synthase; Validated; Region: PRK03739 557600008127 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 557600008128 active site 557600008129 catalytic residues [active] 557600008130 metal binding site [ion binding]; metal-binding site 557600008131 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 557600008132 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600008133 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 557600008134 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 557600008135 S-adenosylmethionine binding site [chemical binding]; other site 557600008136 Sel1 repeat; Region: Sel1; cl02723 557600008137 Sel1 repeat; Region: Sel1; cl02723 557600008138 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 557600008139 active site 557600008140 dimerization interface [polypeptide binding]; other site 557600008141 Membrane transport protein; Region: Mem_trans; cl09117 557600008142 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 557600008143 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 557600008144 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 557600008145 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 557600008146 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 557600008147 NRDE protein; Region: NRDE; cl01315 557600008148 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 557600008149 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 557600008150 dimerization interface [polypeptide binding]; other site 557600008151 active site 557600008152 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 557600008153 folate binding site [chemical binding]; other site 557600008154 NADP+ binding site [chemical binding]; other site 557600008155 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 557600008156 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 557600008157 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 557600008158 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 557600008159 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 557600008160 Gram-negative bacterial tonB protein; Region: TonB; cl10048 557600008161 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 557600008162 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 557600008163 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 557600008164 putative active site [active] 557600008165 putative substrate binding site [chemical binding]; other site 557600008166 putative cosubstrate binding site; other site 557600008167 catalytic site [active] 557600008168 Bacterial transcriptional repressor; Region: TetR; pfam13972 557600008169 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 557600008170 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 557600008171 NAD(P) binding site [chemical binding]; other site 557600008172 catalytic residues [active] 557600008173 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 557600008174 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 557600008175 putative cation:proton antiport protein; Provisional; Region: PRK10669 557600008176 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 557600008177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008178 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 557600008179 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 557600008180 RNA/DNA binding site [nucleotide binding]; other site 557600008181 RRM dimerization site [polypeptide binding]; other site 557600008182 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 557600008183 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600008184 Family description; Region: UvrD_C_2; cl15862 557600008185 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 557600008186 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 557600008187 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 557600008188 active site 557600008189 interdomain interaction site; other site 557600008190 putative metal-binding site [ion binding]; other site 557600008191 nucleotide binding site [chemical binding]; other site 557600008192 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 557600008193 domain I; other site 557600008194 DNA binding groove [nucleotide binding] 557600008195 phosphate binding site [ion binding]; other site 557600008196 domain II; other site 557600008197 domain III; other site 557600008198 nucleotide binding site [chemical binding]; other site 557600008199 catalytic site [active] 557600008200 domain IV; other site 557600008201 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557600008202 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557600008203 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 557600008204 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 557600008205 Helix-turn-helix domains; Region: HTH; cl00088 557600008206 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 557600008207 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 557600008208 putative NAD(P) binding site [chemical binding]; other site 557600008209 dimer interface [polypeptide binding]; other site 557600008210 SlyX; Region: SlyX; cl01090 557600008211 ABC transporter ATPase component; Reviewed; Region: PRK11147 557600008212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600008213 Walker A/P-loop; other site 557600008214 ATP binding site [chemical binding]; other site 557600008215 Q-loop/lid; other site 557600008216 ABC transporter signature motif; other site 557600008217 Walker B; other site 557600008218 D-loop; other site 557600008219 H-loop/switch region; other site 557600008220 ABC transporter; Region: ABC_tran_2; pfam12848 557600008221 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 557600008222 LysE type translocator; Region: LysE; cl00565 557600008223 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 557600008224 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 557600008225 putative acyl-acceptor binding pocket; other site 557600008226 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557600008227 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 557600008228 putative ADP-binding pocket [chemical binding]; other site 557600008229 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 557600008230 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557600008231 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 557600008232 putative catalytic site [active] 557600008233 putative metal binding site [ion binding]; other site 557600008234 putative phosphate binding site [ion binding]; other site 557600008235 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 557600008236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008237 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 557600008238 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 557600008239 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 557600008240 active site 557600008241 homodimer interface [polypeptide binding]; other site 557600008242 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 557600008243 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 557600008244 dimerization interface 3.5A [polypeptide binding]; other site 557600008245 active site 557600008246 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 557600008247 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557600008248 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600008249 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 557600008250 rRNA binding site [nucleotide binding]; other site 557600008251 predicted 30S ribosome binding site; other site 557600008252 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 557600008253 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 557600008254 tartrate dehydrogenase; Provisional; Region: PRK08194 557600008255 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 557600008256 substrate binding site [chemical binding]; other site 557600008257 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 557600008258 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 557600008259 substrate binding site [chemical binding]; other site 557600008260 ligand binding site [chemical binding]; other site 557600008261 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 557600008262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600008263 Helix-turn-helix domains; Region: HTH; cl00088 557600008264 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 557600008265 dimerization interface [polypeptide binding]; other site 557600008266 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 557600008267 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 557600008268 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 557600008269 putative active site [active] 557600008270 Ap4A binding site [chemical binding]; other site 557600008271 nudix motif; other site 557600008272 putative metal binding site [ion binding]; other site 557600008273 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 557600008274 GAF domain; Region: GAF; cl15785 557600008275 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557600008276 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 557600008277 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 557600008278 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 557600008279 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 557600008280 heme binding site [chemical binding]; other site 557600008281 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 557600008282 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600008283 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 557600008284 Helix-turn-helix domains; Region: HTH; cl00088 557600008285 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600008286 dimerization interface [polypeptide binding]; other site 557600008287 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 557600008288 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 557600008289 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 557600008290 putative C-terminal domain interface [polypeptide binding]; other site 557600008291 putative GSH binding site (G-site) [chemical binding]; other site 557600008292 putative dimer interface [polypeptide binding]; other site 557600008293 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 557600008294 dimer interface [polypeptide binding]; other site 557600008295 N-terminal domain interface [polypeptide binding]; other site 557600008296 putative substrate binding pocket (H-site) [chemical binding]; other site 557600008297 Helix-turn-helix domains; Region: HTH; cl00088 557600008298 WYL domain; Region: WYL; cl14852 557600008299 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 557600008300 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 557600008301 motif II; other site 557600008302 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 557600008303 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 557600008304 RNA binding surface [nucleotide binding]; other site 557600008305 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 557600008306 active site 557600008307 ribonuclease E; Reviewed; Region: rne; PRK10811 557600008308 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 557600008309 homodimer interface [polypeptide binding]; other site 557600008310 oligonucleotide binding site [chemical binding]; other site 557600008311 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 557600008312 AMP-binding enzyme; Region: AMP-binding; cl15778 557600008313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600008314 Helix-turn-helix domains; Region: HTH; cl00088 557600008315 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 557600008316 putative effector binding pocket; other site 557600008317 putative dimerization interface [polypeptide binding]; other site 557600008318 short chain dehydrogenase; Provisional; Region: PRK12744 557600008319 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 557600008320 NADP binding site [chemical binding]; other site 557600008321 homodimer interface [polypeptide binding]; other site 557600008322 active site 557600008323 substrate binding site [chemical binding]; other site 557600008324 HemN family oxidoreductase; Provisional; Region: PRK05660 557600008325 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 557600008326 FeS/SAM binding site; other site 557600008327 HemN C-terminal domain; Region: HemN_C; pfam06969 557600008328 Protein of unknown function, DUF606; Region: DUF606; cl01273 557600008329 multidrug efflux protein; Reviewed; Region: PRK01766 557600008330 MatE; Region: MatE; cl10513 557600008331 MatE; Region: MatE; cl10513 557600008332 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 557600008333 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 557600008334 Flavin binding site [chemical binding]; other site 557600008335 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 557600008336 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 557600008337 Flavin binding site [chemical binding]; other site 557600008338 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600008339 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 557600008340 HopJ type III effector protein; Region: HopJ; pfam08888 557600008341 CrcB-like protein; Region: CRCB; cl09114 557600008342 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 557600008343 Predicted flavoproteins [General function prediction only]; Region: COG2081 557600008344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008346 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 557600008347 Domain of unknown function (DUF329); Region: DUF329; cl01144 557600008348 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600008349 ferrochelatase; Reviewed; Region: hemH; PRK00035 557600008350 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 557600008351 C-terminal domain interface [polypeptide binding]; other site 557600008352 active site 557600008353 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 557600008354 active site 557600008355 N-terminal domain interface [polypeptide binding]; other site 557600008356 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 557600008357 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 557600008358 aspartate racemase; Region: asp_race; TIGR00035 557600008359 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 557600008360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008361 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 557600008362 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 557600008363 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 557600008364 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 557600008365 CPxP motif; other site 557600008366 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 557600008367 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 557600008368 Transporter associated domain; Region: CorC_HlyC; cl08393 557600008369 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 557600008370 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 557600008371 putative active site [active] 557600008372 catalytic triad [active] 557600008373 putative dimer interface [polypeptide binding]; other site 557600008374 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 557600008375 dimer interface [polypeptide binding]; other site 557600008376 putative tRNA-binding site [nucleotide binding]; other site 557600008377 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 557600008378 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 557600008379 general secretion pathway protein F; Region: GspF; TIGR02120 557600008380 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 557600008381 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 557600008382 primosome assembly protein PriA; Validated; Region: PRK05580 557600008383 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 557600008384 ATP binding site [chemical binding]; other site 557600008385 putative Mg++ binding site [ion binding]; other site 557600008386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600008387 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 557600008388 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 557600008389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008390 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 557600008391 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 557600008392 dimerization interface [polypeptide binding]; other site 557600008393 domain crossover interface; other site 557600008394 redox-dependent activation switch; other site 557600008395 LysE type translocator; Region: LysE; cl00565 557600008396 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 557600008397 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 557600008398 HSP70 interaction site [polypeptide binding]; other site 557600008399 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 557600008400 substrate binding site [polypeptide binding]; other site 557600008401 dimer interface [polypeptide binding]; other site 557600008402 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 557600008403 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 557600008404 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 557600008405 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 557600008406 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 557600008407 RNase E interface [polypeptide binding]; other site 557600008408 trimer interface [polypeptide binding]; other site 557600008409 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 557600008410 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 557600008411 RNase E interface [polypeptide binding]; other site 557600008412 trimer interface [polypeptide binding]; other site 557600008413 active site 557600008414 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 557600008415 putative nucleic acid binding region [nucleotide binding]; other site 557600008416 G-X-X-G motif; other site 557600008417 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 557600008418 RNA binding site [nucleotide binding]; other site 557600008419 domain interface; other site 557600008420 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 557600008421 16S/18S rRNA binding site [nucleotide binding]; other site 557600008422 S13e-L30e interaction site [polypeptide binding]; other site 557600008423 25S rRNA binding site [nucleotide binding]; other site 557600008424 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557600008425 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600008426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600008427 AAA domain; Region: AAA_22; pfam13401 557600008428 Family description; Region: UvrD_C_2; cl15862 557600008429 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 557600008430 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600008431 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 557600008432 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 557600008433 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 557600008434 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 557600008435 Domain of unknown function (DUF697); Region: DUF697; cl12064 557600008436 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 557600008437 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 557600008438 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 557600008439 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 557600008440 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 557600008441 S-adenosylmethionine binding site [chemical binding]; other site 557600008442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 557600008444 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 557600008445 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600008446 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 557600008447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008449 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 557600008450 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 557600008451 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 557600008452 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 557600008453 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 557600008454 Family description; Region: UvrD_C_2; cl15862 557600008455 AAA domain; Region: AAA_23; pfam13476 557600008456 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600008457 ABC transporter signature motif; other site 557600008458 Walker B; other site 557600008459 D-loop; other site 557600008460 MutS2 family protein; Region: mutS2; TIGR01069 557600008461 H-loop/switch region; other site 557600008462 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 557600008463 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 557600008464 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 557600008465 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 557600008466 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 557600008467 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 557600008468 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 557600008469 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 557600008470 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 557600008471 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 557600008472 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 557600008473 Ribosome-binding factor A; Region: RBFA; cl00542 557600008474 translation initiation factor IF-2; Validated; Region: infB; PRK05306 557600008475 translation initiation factor IF-2; Region: IF-2; TIGR00487 557600008476 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 557600008477 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 557600008478 G1 box; other site 557600008479 putative GEF interaction site [polypeptide binding]; other site 557600008480 GTP/Mg2+ binding site [chemical binding]; other site 557600008481 Switch I region; other site 557600008482 G2 box; other site 557600008483 G3 box; other site 557600008484 Switch II region; other site 557600008485 G4 box; other site 557600008486 G5 box; other site 557600008487 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 557600008488 Translation-initiation factor 2; Region: IF-2; pfam11987 557600008489 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 557600008490 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 557600008491 NusA N-terminal domain; Region: NusA_N; pfam08529 557600008492 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 557600008493 RNA binding site [nucleotide binding]; other site 557600008494 homodimer interface [polypeptide binding]; other site 557600008495 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 557600008496 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 557600008497 G-X-X-G motif; other site 557600008498 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 557600008499 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 557600008500 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 557600008501 ribosome maturation protein RimP; Reviewed; Region: PRK00092 557600008502 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 557600008503 Sm1 motif; other site 557600008504 D1 - D2 interaction site; other site 557600008505 D3 - B interaction site; other site 557600008506 Hfq - Hfq interaction site; other site 557600008507 RNA binding pocket [nucleotide binding]; other site 557600008508 Sm2 motif; other site 557600008509 Preprotein translocase SecG subunit; Region: SecG; cl09123 557600008510 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 557600008511 substrate binding site [chemical binding]; other site 557600008512 dimer interface [polypeptide binding]; other site 557600008513 catalytic triad [active] 557600008514 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 557600008515 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 557600008516 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 557600008517 Walker A motif; other site 557600008518 ATP binding site [chemical binding]; other site 557600008519 Walker B motif; other site 557600008520 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 557600008521 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 557600008522 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 557600008523 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 557600008524 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 557600008525 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 557600008526 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 557600008527 CoA-binding site [chemical binding]; other site 557600008528 ATP-binding [chemical binding]; other site 557600008529 EamA-like transporter family; Region: EamA; cl01037 557600008530 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 557600008531 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 557600008532 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 557600008533 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 557600008534 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 557600008535 binding surface 557600008536 Tetratricopeptide repeat; Region: TPR_16; pfam13432 557600008537 TPR motif; other site 557600008538 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 557600008539 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 557600008540 Walker A/P-loop; other site 557600008541 ATP binding site [chemical binding]; other site 557600008542 Q-loop/lid; other site 557600008543 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 557600008544 ABC transporter signature motif; other site 557600008545 Walker B; other site 557600008546 D-loop; other site 557600008547 H-loop/switch region; other site 557600008548 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 557600008549 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 557600008550 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 557600008551 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 557600008552 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 557600008553 Fusaric acid resistance protein family; Region: FUSC; pfam04632 557600008554 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 557600008555 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557600008556 Helix-turn-helix domains; Region: HTH; cl00088 557600008557 Bacterial transcriptional regulator; Region: IclR; pfam01614 557600008558 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 557600008559 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 557600008560 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600008561 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 557600008562 DNA binding site [nucleotide binding] 557600008563 active site 557600008564 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 557600008565 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 557600008566 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 557600008567 active site 557600008568 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II; cd00556 557600008569 active site 557600008570 dimer interface [polypeptide binding]; other site 557600008571 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 557600008572 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 557600008573 active site 557600008574 catalytic site [active] 557600008575 putative DNA binding site [nucleotide binding]; other site 557600008576 GIY-YIG motif/motif A; other site 557600008577 metal binding site [ion binding]; metal-binding site 557600008578 UvrB/uvrC motif; Region: UVR; pfam02151 557600008579 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 557600008580 Cupin domain; Region: Cupin_2; cl09118 557600008581 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 557600008582 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600008583 substrate binding site [chemical binding]; other site 557600008584 oxyanion hole (OAH) forming residues; other site 557600008585 trimer interface [polypeptide binding]; other site 557600008586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008587 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557600008588 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557600008589 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 557600008590 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 557600008591 dimer interface [polypeptide binding]; other site 557600008592 active site 557600008593 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600008594 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557600008595 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 557600008596 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 557600008597 DNA binding residues [nucleotide binding] 557600008598 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 557600008599 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 557600008600 catalytic residues [active] 557600008601 heat shock protein 90; Provisional; Region: PRK05218 557600008602 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 557600008603 ATP binding site [chemical binding]; other site 557600008604 Mg2+ binding site [ion binding]; other site 557600008605 G-X-G motif; other site 557600008606 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 557600008607 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 557600008608 Predicted permease [General function prediction only]; Region: COG2056 557600008609 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 557600008610 short chain dehydrogenase; Validated; Region: PRK05855 557600008611 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 557600008612 CoenzymeA binding site [chemical binding]; other site 557600008613 subunit interaction site [polypeptide binding]; other site 557600008614 PHB binding site; other site 557600008615 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 557600008616 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 557600008617 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 557600008618 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 557600008619 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 557600008620 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 557600008621 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 557600008622 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 557600008623 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 557600008624 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 557600008625 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 557600008626 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 557600008627 DNA binding site [nucleotide binding] 557600008628 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 557600008629 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 557600008630 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 557600008631 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 557600008632 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 557600008633 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 557600008634 RPB11 interaction site [polypeptide binding]; other site 557600008635 RPB12 interaction site [polypeptide binding]; other site 557600008636 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 557600008637 RPB1 interaction site [polypeptide binding]; other site 557600008638 RPB11 interaction site [polypeptide binding]; other site 557600008639 RPB10 interaction site [polypeptide binding]; other site 557600008640 RPB3 interaction site [polypeptide binding]; other site 557600008641 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 557600008642 core dimer interface [polypeptide binding]; other site 557600008643 peripheral dimer interface [polypeptide binding]; other site 557600008644 L10 interface [polypeptide binding]; other site 557600008645 L11 interface [polypeptide binding]; other site 557600008646 putative EF-Tu interaction site [polypeptide binding]; other site 557600008647 putative EF-G interaction site [polypeptide binding]; other site 557600008648 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 557600008649 23S rRNA interface [nucleotide binding]; other site 557600008650 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 557600008651 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 557600008652 mRNA/rRNA interface [nucleotide binding]; other site 557600008653 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 557600008654 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 557600008655 23S rRNA interface [nucleotide binding]; other site 557600008656 L7/L12 interface [polypeptide binding]; other site 557600008657 putative thiostrepton binding site; other site 557600008658 L25 interface [polypeptide binding]; other site 557600008659 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 557600008660 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 557600008661 putative homodimer interface [polypeptide binding]; other site 557600008662 KOW motif; Region: KOW; cl00354 557600008663 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 557600008664 elongation factor Tu; Reviewed; Region: PRK00049 557600008665 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 557600008666 G1 box; other site 557600008667 GEF interaction site [polypeptide binding]; other site 557600008668 GTP/Mg2+ binding site [chemical binding]; other site 557600008669 Switch I region; other site 557600008670 G2 box; other site 557600008671 G3 box; other site 557600008672 Switch II region; other site 557600008673 G4 box; other site 557600008674 G5 box; other site 557600008675 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 557600008676 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 557600008677 Antibiotic Binding Site [chemical binding]; other site 557600008678 anthranilate synthase component I; Provisional; Region: PRK13565 557600008679 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 557600008680 chorismate binding enzyme; Region: Chorismate_bind; cl10555 557600008681 phosphoglycolate phosphatase; Provisional; Region: PRK13222 557600008682 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 557600008683 motif II; other site 557600008684 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 557600008685 phosphopeptide binding site; other site 557600008686 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 557600008687 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557600008688 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557600008689 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557600008690 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557600008691 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 557600008692 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 557600008693 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 557600008694 H-NS histone family; Region: Histone_HNS; pfam00816 557600008695 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 557600008696 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 557600008697 active site 557600008698 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 557600008699 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 557600008700 active site 557600008701 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 557600008702 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 557600008703 domain interfaces; other site 557600008704 active site 557600008705 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 557600008706 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 557600008707 active site 557600008708 phosphorylation site [posttranslational modification] 557600008709 intermolecular recognition site; other site 557600008710 dimerization interface [polypeptide binding]; other site 557600008711 LytTr DNA-binding domain; Region: LytTR; cl04498 557600008712 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 557600008713 Histidine kinase; Region: His_kinase; pfam06580 557600008714 argininosuccinate lyase; Provisional; Region: PRK00855 557600008715 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 557600008716 active sites [active] 557600008717 tetramer interface [polypeptide binding]; other site 557600008718 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 557600008719 transcriptional regulator PhoU; Provisional; Region: PRK11115 557600008720 PhoU domain; Region: PhoU; pfam01895 557600008721 PhoU domain; Region: PhoU; pfam01895 557600008722 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 557600008723 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557600008724 EamA-like transporter family; Region: EamA; cl01037 557600008725 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600008726 Helix-turn-helix domains; Region: HTH; cl00088 557600008727 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 557600008728 ThiC-associated domain; Region: ThiC-associated; pfam13667 557600008729 ThiC family; Region: ThiC; cl08031 557600008730 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 557600008731 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 557600008732 dimer interface [polypeptide binding]; other site 557600008733 ADP-ribose binding site [chemical binding]; other site 557600008734 active site 557600008735 nudix motif; other site 557600008736 metal binding site [ion binding]; metal-binding site 557600008737 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 557600008738 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557600008739 active site 557600008740 metal binding site [ion binding]; metal-binding site 557600008741 hexamer interface [polypeptide binding]; other site 557600008742 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 557600008743 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557600008744 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557600008745 active site 557600008746 KMSKS motif; other site 557600008747 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 557600008748 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 557600008749 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557600008750 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557600008751 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 557600008752 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 557600008753 G1 box; other site 557600008754 GTP/Mg2+ binding site [chemical binding]; other site 557600008755 Switch I region; other site 557600008756 G2 box; other site 557600008757 G3 box; other site 557600008758 Switch II region; other site 557600008759 G4 box; other site 557600008760 G5 box; other site 557600008761 Nucleoside recognition; Region: Gate; cl00486 557600008762 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 557600008763 Nucleoside recognition; Region: Gate; cl00486 557600008764 FeoA domain; Region: FeoA; cl00838 557600008765 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 557600008766 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 557600008767 active site 557600008768 Int/Topo IB signature motif; other site 557600008769 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 557600008770 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 557600008771 dimerization domain [polypeptide binding]; other site 557600008772 dimer interface [polypeptide binding]; other site 557600008773 catalytic residues [active] 557600008774 homoserine dehydrogenase; Provisional; Region: PRK06349 557600008775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008776 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 557600008777 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 557600008778 threonine synthase; Reviewed; Region: PRK06721 557600008779 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 557600008780 homodimer interface [polypeptide binding]; other site 557600008781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600008782 catalytic residue [active] 557600008783 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 557600008784 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 557600008785 response regulator; Provisional; Region: PRK09483 557600008786 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 557600008787 active site 557600008788 phosphorylation site [posttranslational modification] 557600008789 intermolecular recognition site; other site 557600008790 dimerization interface [polypeptide binding]; other site 557600008791 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 557600008792 DNA binding residues [nucleotide binding] 557600008793 dimerization interface [polypeptide binding]; other site 557600008794 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 557600008795 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 557600008796 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 557600008797 dimer interface [polypeptide binding]; other site 557600008798 phosphorylation site [posttranslational modification] 557600008799 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 557600008800 ATP binding site [chemical binding]; other site 557600008801 Mg2+ binding site [ion binding]; other site 557600008802 G-X-G motif; other site 557600008803 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 557600008804 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 557600008805 active site 557600008806 phosphorylation site [posttranslational modification] 557600008807 intermolecular recognition site; other site 557600008808 dimerization interface [polypeptide binding]; other site 557600008809 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 557600008810 Walker A motif; other site 557600008811 ATP binding site [chemical binding]; other site 557600008812 Walker B motif; other site 557600008813 arginine finger; other site 557600008814 Helix-turn-helix domains; Region: HTH; cl00088 557600008815 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 557600008816 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 557600008817 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; cd00136 557600008818 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 557600008819 Catalytic dyad [active] 557600008820 Sulfatase; Region: Sulfatase; cl10460 557600008821 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 557600008822 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 557600008823 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 557600008824 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 557600008825 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 557600008826 multifunctional aminopeptidase A; Provisional; Region: PRK00913 557600008827 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 557600008828 interface (dimer of trimers) [polypeptide binding]; other site 557600008829 Substrate-binding/catalytic site; other site 557600008830 Zn-binding sites [ion binding]; other site 557600008831 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 557600008832 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 557600008833 Lumazine binding domain; Region: Lum_binding; pfam00677 557600008834 Lumazine binding domain; Region: Lum_binding; pfam00677 557600008835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600008836 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 557600008837 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 557600008838 catalytic motif [active] 557600008839 Zn binding site [ion binding]; other site 557600008840 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 557600008841 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 557600008842 ATP cone domain; Region: ATP-cone; pfam03477 557600008843 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 557600008844 Nitrogen regulatory protein P-II; Region: P-II; cl00412 557600008845 Nitrogen regulatory protein P-II; Region: P-II; smart00938 557600008846 Membrane fusogenic activity; Region: BMFP; cl01115 557600008847 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 557600008848 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 557600008849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600008850 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 557600008851 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600008852 DNA-binding site [nucleotide binding]; DNA binding site 557600008853 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 557600008854 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 557600008855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600008856 homodimer interface [polypeptide binding]; other site 557600008857 catalytic residue [active] 557600008858 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 557600008859 intersubunit interface [polypeptide binding]; other site 557600008860 active site 557600008861 Zn2+ binding site [ion binding]; other site 557600008862 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557600008863 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 557600008864 inhibitor site; inhibition site 557600008865 active site 557600008866 dimer interface [polypeptide binding]; other site 557600008867 catalytic residue [active] 557600008868 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 557600008869 outer membrane porin, OprD family; Region: OprD; pfam03573 557600008870 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 557600008871 dimer interface [polypeptide binding]; other site 557600008872 substrate binding site [chemical binding]; other site 557600008873 metal binding sites [ion binding]; metal-binding site 557600008874 MAPEG family; Region: MAPEG; cl09190 557600008875 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 557600008876 AMP-binding enzyme; Region: AMP-binding; cl15778 557600008877 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600008878 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 557600008879 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 557600008880 CAP-like domain; other site 557600008881 active site 557600008882 primary dimer interface [polypeptide binding]; other site 557600008883 benzoate transport; Region: 2A0115; TIGR00895 557600008884 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 557600008885 putative substrate translocation pore; other site 557600008886 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 557600008887 Predicted membrane protein [Function unknown]; Region: COG2860 557600008888 UPF0126 domain; Region: UPF0126; pfam03458 557600008889 UPF0126 domain; Region: UPF0126; pfam03458 557600008890 hypothetical protein; Provisional; Region: PRK01752 557600008891 SEC-C motif; Region: SEC-C; pfam02810 557600008892 Integral membrane protein TerC family; Region: TerC; cl10468 557600008893 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 557600008894 Transporter associated domain; Region: CorC_HlyC; cl08393 557600008895 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 557600008896 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 557600008897 putative transporter; Provisional; Region: PRK10504 557600008898 putative substrate translocation pore; other site 557600008899 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 557600008900 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 557600008901 active site 557600008902 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 557600008903 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 557600008904 active site 557600008905 DNA polymerase IV; Validated; Region: PRK02406 557600008906 DNA binding site [nucleotide binding] 557600008907 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 557600008908 homotrimer interaction site [polypeptide binding]; other site 557600008909 putative active site [active] 557600008910 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 557600008911 hypothetical protein; Provisional; Region: PRK01254 557600008912 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 557600008913 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 557600008914 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 557600008915 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 557600008916 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 557600008917 active site 557600008918 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 557600008919 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 557600008920 DNA binding residues [nucleotide binding] 557600008921 putative dimer interface [polypeptide binding]; other site 557600008922 putative metal binding residues [ion binding]; other site 557600008923 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 557600008924 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600008925 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600008926 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 557600008927 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 557600008928 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557600008929 catalytic residue [active] 557600008930 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557600008931 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 557600008932 dimer interface [polypeptide binding]; other site 557600008933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600008934 catalytic residue [active] 557600008935 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600008936 Helix-turn-helix domains; Region: HTH; cl00088 557600008937 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 557600008938 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 557600008939 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600008940 N-terminal plug; other site 557600008941 ligand-binding site [chemical binding]; other site 557600008942 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 557600008943 active site 557600008944 catalytic residues [active] 557600008945 metal binding site [ion binding]; metal-binding site 557600008946 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 557600008947 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 557600008948 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 557600008949 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 557600008950 EamA-like transporter family; Region: EamA; cl01037 557600008951 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557600008952 EamA-like transporter family; Region: EamA; cl01037 557600008953 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600008954 Helix-turn-helix domains; Region: HTH; cl00088 557600008955 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557600008956 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 557600008957 putative substrate translocation pore; other site 557600008958 Helix-turn-helix domain; Region: HTH_18; pfam12833 557600008959 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557600008960 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 557600008961 catalytic residues [active] 557600008962 dimer interface [polypeptide binding]; other site 557600008963 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 557600008964 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 557600008965 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 557600008966 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 557600008967 alpha subunit interaction interface [polypeptide binding]; other site 557600008968 Walker A motif; other site 557600008969 ATP binding site [chemical binding]; other site 557600008970 Walker B motif; other site 557600008971 inhibitor binding site; inhibition site 557600008972 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557600008973 ATP synthase; Region: ATP-synt; cl00365 557600008974 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 557600008975 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 557600008976 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 557600008977 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600008978 Walker A motif; other site 557600008979 ATP binding site [chemical binding]; other site 557600008980 Walker B motif; other site 557600008981 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557600008982 Plant ATP synthase F0; Region: YMF19; cl07975 557600008983 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 557600008984 Plant ATP synthase F0; Region: YMF19; cl07975 557600008985 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 557600008986 ATP synthase subunit C; Region: ATP-synt_C; cl00466 557600008987 ATP synthase A chain; Region: ATP-synt_A; cl00413 557600008988 ATP synthase I chain; Region: ATP_synt_I; cl09170 557600008989 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 557600008990 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 557600008991 intersubunit interface [polypeptide binding]; other site 557600008992 Helix-turn-helix domains; Region: HTH; cl00088 557600008993 metal binding site 2 [ion binding]; metal-binding site 557600008994 putative DNA binding helix; other site 557600008995 metal binding site 1 [ion binding]; metal-binding site 557600008996 dimer interface [polypeptide binding]; other site 557600008997 structural Zn2+ binding site [ion binding]; other site 557600008998 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 557600008999 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 557600009000 Walker A/P-loop; other site 557600009001 ATP binding site [chemical binding]; other site 557600009002 Q-loop/lid; other site 557600009003 ABC transporter signature motif; other site 557600009004 Walker B; other site 557600009005 D-loop; other site 557600009006 H-loop/switch region; other site 557600009007 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 557600009008 ABC-ATPase subunit interface; other site 557600009009 dimer interface [polypeptide binding]; other site 557600009010 putative PBP binding regions; other site 557600009011 LysE type translocator; Region: LysE; cl00565 557600009012 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 557600009013 malate dehydrogenase; Provisional; Region: PRK13529 557600009014 Malic enzyme, N-terminal domain; Region: malic; pfam00390 557600009015 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 557600009016 NAD(P) binding site [chemical binding]; other site 557600009017 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 557600009018 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 557600009019 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557600009020 active site 557600009021 HIGH motif; other site 557600009022 nucleotide binding site [chemical binding]; other site 557600009023 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 557600009024 KMSK motif region; other site 557600009025 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 557600009026 tRNA binding surface [nucleotide binding]; other site 557600009027 anticodon binding site; other site 557600009028 cell division protein FtsN; Region: ftsN; TIGR02223 557600009029 Sporulation related domain; Region: SPOR; cl10051 557600009030 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 557600009031 putative dimer interface [polypeptide binding]; other site 557600009032 putative GSH binding site (G-site) [chemical binding]; other site 557600009033 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 557600009034 putative N-terminal domain interface [polypeptide binding]; other site 557600009035 putative dimer interface [polypeptide binding]; other site 557600009036 putative substrate binding pocket (H-site) [chemical binding]; other site 557600009037 OsmC-like protein; Region: OsmC; cl00767 557600009038 Pirin-related protein [General function prediction only]; Region: COG1741 557600009039 Cupin domain; Region: Cupin_2; cl09118 557600009040 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 557600009041 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 557600009042 Helix-turn-helix domains; Region: HTH; cl00088 557600009043 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 557600009044 active site 557600009045 NTP binding site [chemical binding]; other site 557600009046 metal binding triad [ion binding]; metal-binding site 557600009047 antibiotic binding site [chemical binding]; other site 557600009048 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 557600009049 GMP synthase; Reviewed; Region: guaA; PRK00074 557600009050 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 557600009051 AMP/PPi binding site [chemical binding]; other site 557600009052 candidate oxyanion hole; other site 557600009053 catalytic triad [active] 557600009054 potential glutamine specificity residues [chemical binding]; other site 557600009055 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 557600009056 ATP Binding subdomain [chemical binding]; other site 557600009057 Ligand Binding sites [chemical binding]; other site 557600009058 Dimerization subdomain; other site 557600009059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 557600009060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 557600009061 DoxX; Region: DoxX; cl00976 557600009062 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 557600009063 LysE type translocator; Region: LysE; cl00565 557600009064 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557600009065 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 557600009066 P-loop; other site 557600009067 Magnesium ion binding site [ion binding]; other site 557600009068 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 557600009069 Magnesium ion binding site [ion binding]; other site 557600009070 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 557600009071 BolA-like protein; Region: BolA; cl00386 557600009072 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 557600009073 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 557600009074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600009075 NAD(P) binding site [chemical binding]; other site 557600009076 active site 557600009077 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557600009078 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600009079 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 557600009080 hydrophobic ligand binding site; other site 557600009081 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 557600009082 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 557600009083 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 557600009084 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 557600009085 AMP-binding enzyme; Region: AMP-binding; cl15778 557600009086 Phosphopantetheine attachment site; Region: PP-binding; cl09936 557600009087 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 557600009088 Phosphopantetheine attachment site; Region: PP-binding; cl09936 557600009089 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 557600009090 active site 557600009091 acyl-CoA synthetase; Validated; Region: PRK05850 557600009092 AMP-binding enzyme; Region: AMP-binding; cl15778 557600009093 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 557600009094 Autoinducer binding domain; Region: Autoind_bind; pfam03472 557600009095 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 557600009096 DNA binding residues [nucleotide binding] 557600009097 dimerization interface [polypeptide binding]; other site 557600009098 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 557600009099 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 557600009100 metabolite-proton symporter; Region: 2A0106; TIGR00883 557600009101 putative substrate translocation pore; other site 557600009102 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 557600009103 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600009104 substrate binding site [chemical binding]; other site 557600009105 oxyanion hole (OAH) forming residues; other site 557600009106 trimer interface [polypeptide binding]; other site 557600009107 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 557600009108 enoyl-CoA hydratase; Provisional; Region: PRK05862 557600009109 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 557600009110 substrate binding site [chemical binding]; other site 557600009111 oxyanion hole (OAH) forming residues; other site 557600009112 trimer interface [polypeptide binding]; other site 557600009113 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557600009114 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557600009115 active site 557600009116 acetyl-CoA synthetase; Provisional; Region: PRK04319 557600009117 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 557600009118 AMP-binding enzyme; Region: AMP-binding; cl15778 557600009119 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557600009120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600009121 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 557600009122 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 557600009123 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 557600009124 tetrameric interface [polypeptide binding]; other site 557600009125 NAD binding site [chemical binding]; other site 557600009126 catalytic residues [active] 557600009127 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600009128 Helix-turn-helix domains; Region: HTH; cl00088 557600009129 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 557600009130 dimerization interface [polypeptide binding]; other site 557600009131 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 557600009132 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 557600009133 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 557600009134 homotrimer interaction site [polypeptide binding]; other site 557600009135 putative active site [active] 557600009136 alanine racemase; Reviewed; Region: dadX; PRK03646 557600009137 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 557600009138 active site 557600009139 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557600009140 substrate binding site [chemical binding]; other site 557600009141 catalytic residues [active] 557600009142 dimer interface [polypeptide binding]; other site 557600009143 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 557600009144 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557600009145 mRNA stabilisation; Region: mRNA_stabil; pfam13929 557600009146 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557600009147 Helix-turn-helix domains; Region: HTH; cl00088 557600009148 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 557600009149 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 557600009150 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 557600009151 N-terminal plug; other site 557600009152 ligand-binding site [chemical binding]; other site 557600009153 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 557600009154 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 557600009155 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 557600009156 active site 557600009157 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 557600009158 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 557600009159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600009160 NAD(P) binding site [chemical binding]; other site 557600009161 active site 557600009162 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 557600009163 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 557600009164 nudix motif; other site 557600009165 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 557600009166 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 557600009167 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 557600009168 substrate binding site [chemical binding]; other site 557600009169 ligand binding site [chemical binding]; other site 557600009170 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 557600009171 substrate binding site [chemical binding]; other site 557600009172 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 557600009173 Citrate synthase; Region: Citrate_synt; pfam00285 557600009174 oxalacetate binding site [chemical binding]; other site 557600009175 citrylCoA binding site [chemical binding]; other site 557600009176 coenzyme A binding site [chemical binding]; other site 557600009177 catalytic triad [active] 557600009178 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 557600009179 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 557600009180 tetramer interface [polypeptide binding]; other site 557600009181 active site 557600009182 Mg2+/Mn2+ binding site [ion binding]; other site 557600009183 Transcriptional regulators [Transcription]; Region: GntR; COG1802 557600009184 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600009185 DNA-binding site [nucleotide binding]; DNA binding site 557600009186 FCD domain; Region: FCD; cl11656 557600009187 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 557600009188 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 557600009189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600009190 homodimer interface [polypeptide binding]; other site 557600009191 catalytic residue [active] 557600009192 D-lactate dehydrogenase; Provisional; Region: PRK11183 557600009193 FAD binding domain; Region: FAD_binding_4; pfam01565 557600009194 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 557600009195 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 557600009196 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 557600009197 phosphate binding site [ion binding]; other site 557600009198 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 557600009199 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557600009200 DNA-binding site [nucleotide binding]; DNA binding site 557600009201 FCD domain; Region: FCD; cl11656 557600009202 L-lactate permease; Region: Lactate_perm; cl00701 557600009203 glycolate transporter; Provisional; Region: PRK09695 557600009204 phosphomannomutase CpsG; Provisional; Region: PRK15414 557600009205 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 557600009206 active site 557600009207 substrate binding site [chemical binding]; other site 557600009208 metal binding site [ion binding]; metal-binding site 557600009209 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 557600009210 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 557600009211 active site 557600009212 dimer interface [polypeptide binding]; other site 557600009213 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 557600009214 dimer interface [polypeptide binding]; other site 557600009215 active site 557600009216 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 557600009217 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 557600009218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600009219 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 557600009220 active site 557600009221 tetramer interface; other site 557600009222 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 557600009223 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 557600009224 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 557600009225 NAD(P) binding site [chemical binding]; other site 557600009226 homodimer interface [polypeptide binding]; other site 557600009227 substrate binding site [chemical binding]; other site 557600009228 active site 557600009229 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 557600009230 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 557600009231 inhibitor-cofactor binding pocket; inhibition site 557600009232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557600009233 catalytic residue [active] 557600009234 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 557600009235 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 557600009236 putative trimer interface [polypeptide binding]; other site 557600009237 putative CoA binding site [chemical binding]; other site 557600009238 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557600009239 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 557600009240 putative ADP-binding pocket [chemical binding]; other site 557600009241 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 557600009242 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 557600009243 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 557600009244 NAD binding site [chemical binding]; other site 557600009245 substrate binding site [chemical binding]; other site 557600009246 homodimer interface [polypeptide binding]; other site 557600009247 active site 557600009248 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 557600009249 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 557600009250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600009251 polysaccharide export protein Wza; Provisional; Region: PRK15078 557600009252 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 557600009253 Low molecular weight phosphatase family; Region: LMWPc; cd00115 557600009254 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 557600009255 active site 557600009256 tyrosine kinase; Provisional; Region: PRK11519 557600009257 Chain length determinant protein; Region: Wzz; cl15801 557600009258 Chain length determinant protein; Region: Wzz; cl15801 557600009259 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 557600009260 P loop; other site 557600009261 Nucleotide binding site [chemical binding]; other site 557600009262 DTAP/Switch II; other site 557600009263 Switch I; other site 557600009264 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 557600009265 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 557600009266 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 557600009267 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 557600009268 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 557600009269 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 557600009270 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 557600009271 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 557600009272 amidase catalytic site [active] 557600009273 Zn binding residues [ion binding]; other site 557600009274 substrate binding site [chemical binding]; other site 557600009275 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 557600009276 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 557600009277 dimerization interface [polypeptide binding]; other site 557600009278 active site 557600009279 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 557600009280 Phosphoesterase family; Region: Phosphoesterase; cl15450 557600009281 Domain of unknown function (DUF756); Region: DUF756; pfam05506 557600009282 Domain of unknown function (DUF756); Region: DUF756; pfam05506 557600009283 ribonuclease PH; Reviewed; Region: rph; PRK00173 557600009284 Ribonuclease PH; Region: RNase_PH_bact; cd11362 557600009285 hexamer interface [polypeptide binding]; other site 557600009286 active site 557600009287 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 557600009288 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 557600009289 putative di-iron ligands [ion binding]; other site 557600009290 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 557600009291 FMN reductase; Validated; Region: fre; PRK08051 557600009292 FAD binding pocket [chemical binding]; other site 557600009293 FAD binding motif [chemical binding]; other site 557600009294 phosphate binding motif [ion binding]; other site 557600009295 beta-alpha-beta structure motif; other site 557600009296 NAD binding pocket [chemical binding]; other site 557600009297 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 557600009298 catalytic loop [active] 557600009299 iron binding site [ion binding]; other site 557600009300 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 557600009301 Helix-turn-helix domains; Region: HTH; cl00088 557600009302 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557600009303 Helix-turn-helix domains; Region: HTH; cl00088 557600009304 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 557600009305 catalytic residues [active] 557600009306 hinge region; other site 557600009307 alpha helical domain; other site 557600009308 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 557600009309 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 557600009310 S-adenosylmethionine binding site [chemical binding]; other site 557600009311 phosphoglycolate phosphatase; Provisional; Region: PRK13222 557600009312 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 557600009313 active site 557600009314 motif I; other site 557600009315 motif II; other site 557600009316 short chain dehydrogenase; Provisional; Region: PRK08703 557600009317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557600009318 NAD(P) binding site [chemical binding]; other site 557600009319 active site 557600009320 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 557600009321 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 557600009322 N-acetylglutamate synthase; Validated; Region: PRK05279 557600009323 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 557600009324 putative nucleotide binding site [chemical binding]; other site 557600009325 putative substrate binding site [chemical binding]; other site 557600009326 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557600009327 Coenzyme A binding pocket [chemical binding]; other site 557600009328 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557600009329 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 557600009330 substrate binding pocket [chemical binding]; other site 557600009331 membrane-bound complex binding site; other site 557600009332 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 557600009333 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 557600009334 substrate binding pocket [chemical binding]; other site 557600009335 membrane-bound complex binding site; other site 557600009336 hinge residues; other site 557600009337 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 557600009338 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 557600009339 active site 557600009340 dimer interface [polypeptide binding]; other site 557600009341 non-prolyl cis peptide bond; other site 557600009342 insertion regions; other site 557600009343 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 557600009344 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557600009345 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 557600009346 putative PBP binding loops; other site 557600009347 dimer interface [polypeptide binding]; other site 557600009348 ABC-ATPase subunit interface; other site 557600009349 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 557600009350 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 557600009351 Walker A/P-loop; other site 557600009352 ATP binding site [chemical binding]; other site 557600009353 Q-loop/lid; other site 557600009354 ABC transporter signature motif; other site 557600009355 Walker B; other site 557600009356 D-loop; other site 557600009357 H-loop/switch region; other site 557600009358 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 557600009359 Helix-turn-helix domains; Region: HTH; cl00088 557600009360 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 557600009361 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 557600009362 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 557600009363 gating phenylalanine in ion channel; other site 557600009364 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 557600009365 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 557600009366 active site 557600009367 Riboflavin kinase; Region: Flavokinase; cl03312 557600009368 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 557600009369 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557600009370 active site 557600009371 HIGH motif; other site 557600009372 nucleotide binding site [chemical binding]; other site 557600009373 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557600009374 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 557600009375 active site 557600009376 KMSKS motif; other site 557600009377 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 557600009378 tRNA binding surface [nucleotide binding]; other site 557600009379 anticodon binding site; other site 557600009380 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557600009381 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 557600009382 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 557600009383 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 557600009384 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 557600009385 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 557600009386 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 557600009387 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 557600009388 substrate binding site [chemical binding]; other site 557600009389 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600009390 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557600009391 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 557600009392 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557600009393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557600009394 Helix-turn-helix domains; Region: HTH; cl00088 557600009395 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557600009396 putative effector binding pocket; other site 557600009397 dimerization interface [polypeptide binding]; other site 557600009398 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 557600009399 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 557600009400 dimer interface [polypeptide binding]; other site 557600009401 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 557600009402 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 557600009403 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 557600009404 active site 557600009405 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 557600009406 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 557600009407 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 557600009408 active site 557600009409 active site 557600009410 Transglycosylase SLT domain; Region: SLT_2; pfam13406 557600009411 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 557600009412 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 557600009413 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 557600009414 ATP-grasp domain; Region: ATP-grasp_4; cl03087 557600009415 AIR carboxylase; Region: AIRC; cl00310 557600009416 Protein of unknown function, DUF486; Region: DUF486; cl01236 557600009417 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 557600009418 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557600009419 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557600009420 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557600009421 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 557600009422 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 557600009423 active site 557600009424 Integral membrane protein TerC family; Region: TerC; cl10468 557600009425 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 557600009426 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 557600009427 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 557600009428 [2Fe-2S] cluster binding site [ion binding]; other site 557600009429 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 557600009430 hydrophobic ligand binding site; other site 557600009431 guanine deaminase; Provisional; Region: PRK09228 557600009432 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 557600009433 active site 557600009434 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557600009435 active site 557600009436 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 557600009437 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 557600009438 dimerization domain [polypeptide binding]; other site 557600009439 dimer interface [polypeptide binding]; other site 557600009440 catalytic residues [active] 557600009441 Cation efflux family; Region: Cation_efflux; cl00316 557600009442 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 557600009443 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 557600009444 putative metal binding site [ion binding]; other site 557600009445 putative homodimer interface [polypeptide binding]; other site 557600009446 putative homotetramer interface [polypeptide binding]; other site 557600009447 putative homodimer-homodimer interface [polypeptide binding]; other site 557600009448 putative allosteric switch controlling residues; other site 557600009449 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 557600009450 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 557600009451 trmE is a tRNA modification GTPase; Region: trmE; cd04164 557600009452 G1 box; other site 557600009453 GTP/Mg2+ binding site [chemical binding]; other site 557600009454 Switch I region; other site 557600009455 G2 box; other site 557600009456 Switch II region; other site 557600009457 G3 box; other site 557600009458 G4 box; other site 557600009459 G5 box; other site 557600009460 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 557600009461 membrane protein insertase; Provisional; Region: PRK01318 557600009462 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 557600009463 Haemolytic domain; Region: Haemolytic; cl00506 557600009464 Ribonuclease P; Region: Ribonuclease_P; cl00457 557600009465 Ribosomal protein L34; Region: Ribosomal_L34; cl00370