-- dump date 20120504_131929 -- class Genbank::misc_feature -- table misc_feature_note -- id note 871585000001 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 871585000002 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 871585000003 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 871585000004 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 871585000005 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 871585000006 trimer interface [polypeptide binding]; other site 871585000007 active site 871585000008 substrate binding site [chemical binding]; other site 871585000009 CoA binding site [chemical binding]; other site 871585000010 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 871585000011 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 871585000012 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 871585000013 catalytic residues [active] 871585000014 catalytic nucleophile [active] 871585000015 Helix-turn-helix domains; Region: HTH; cl00088 871585000016 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 871585000017 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 871585000018 DNA-binding interface [nucleotide binding]; DNA binding site 871585000019 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 871585000020 dimer interface [polypeptide binding]; other site 871585000021 putative radical transfer pathway; other site 871585000022 diiron center [ion binding]; other site 871585000023 tyrosyl radical; other site 871585000024 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 871585000025 ATP cone domain; Region: ATP-cone; pfam03477 871585000026 ATP cone domain; Region: ATP-cone; pfam03477 871585000027 Class I ribonucleotide reductase; Region: RNR_I; cd01679 871585000028 active site 871585000029 dimer interface [polypeptide binding]; other site 871585000030 catalytic residues [active] 871585000031 effector binding site; other site 871585000032 R2 peptide binding site; other site 871585000033 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 871585000034 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 871585000035 active site 871585000036 phosphorylation site [posttranslational modification] 871585000037 intermolecular recognition site; other site 871585000038 dimerization interface [polypeptide binding]; other site 871585000039 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 871585000040 DNA binding site [nucleotide binding] 871585000041 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871585000042 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 871585000043 dimerization interface [polypeptide binding]; other site 871585000044 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 871585000045 dimer interface [polypeptide binding]; other site 871585000046 phosphorylation site [posttranslational modification] 871585000047 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 871585000048 ATP binding site [chemical binding]; other site 871585000049 Mg2+ binding site [ion binding]; other site 871585000050 G-X-G motif; other site 871585000051 MASE1; Region: MASE1; pfam05231 871585000052 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871585000053 metal binding site [ion binding]; metal-binding site 871585000054 active site 871585000055 I-site; other site 871585000056 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 871585000057 NADH dehydrogenase subunit B; Validated; Region: PRK06411 871585000058 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 871585000059 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 871585000060 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 871585000061 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 871585000062 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 871585000063 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 871585000064 putative dimer interface [polypeptide binding]; other site 871585000065 [2Fe-2S] cluster binding site [ion binding]; other site 871585000066 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 871585000067 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 871585000068 SLBB domain; Region: SLBB; pfam10531 871585000069 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 871585000070 NADH dehydrogenase subunit G; Validated; Region: PRK08166 871585000071 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 871585000072 catalytic loop [active] 871585000073 iron binding site [ion binding]; other site 871585000074 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 871585000075 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 871585000076 [4Fe-4S] binding site [ion binding]; other site 871585000077 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 871585000078 NADH dehydrogenase; Region: NADHdh; cl00469 871585000079 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 871585000080 4Fe-4S binding domain; Region: Fer4; cl02805 871585000081 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 871585000082 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 871585000083 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 871585000084 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 871585000085 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 871585000086 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 871585000087 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 871585000088 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 871585000089 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 871585000090 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871585000091 active site 871585000092 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 871585000093 DNA-binding site [nucleotide binding]; DNA binding site 871585000094 RNA-binding motif; other site 871585000095 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 871585000096 Helix-turn-helix domains; Region: HTH; cl00088 871585000097 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 871585000098 putative dimerization interface [polypeptide binding]; other site 871585000099 ferredoxin-NADP reductase; Provisional; Region: PRK10926 871585000100 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 871585000101 FAD binding pocket [chemical binding]; other site 871585000102 FAD binding motif [chemical binding]; other site 871585000103 phosphate binding motif [ion binding]; other site 871585000104 beta-alpha-beta structure motif; other site 871585000105 NAD binding pocket [chemical binding]; other site 871585000106 Conserved TM helix; Region: TM_helix; pfam05552 871585000107 Conserved TM helix; Region: TM_helix; pfam05552 871585000108 Conserved TM helix; Region: TM_helix; pfam05552 871585000109 Conserved TM helix; Region: TM_helix; pfam05552 871585000110 HI0933-like protein; Region: HI0933_like; pfam03486 871585000111 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 871585000112 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 871585000113 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871585000114 catalytic residue [active] 871585000115 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 871585000116 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 871585000117 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 871585000118 putative substrate translocation pore; other site 871585000119 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 871585000120 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585000121 Helix-turn-helix domains; Region: HTH; cl00088 871585000122 LysE type translocator; Region: LysE; cl00565 871585000123 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 871585000124 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 871585000125 active site 871585000126 HIGH motif; other site 871585000127 KMSKS motif; other site 871585000128 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 871585000129 tRNA binding surface [nucleotide binding]; other site 871585000130 anticodon binding site; other site 871585000131 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 871585000132 dimer interface [polypeptide binding]; other site 871585000133 putative tRNA-binding site [nucleotide binding]; other site 871585000134 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 871585000135 potential frameshift: common BLAST hit: gi|184157060|ref|YP_001845399.1| nucleoside phosphorylase 871585000136 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 871585000137 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 871585000138 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 871585000139 LysE type translocator; Region: LysE; cl00565 871585000140 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 871585000141 trimer interface [polypeptide binding]; other site 871585000142 active site 871585000143 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 871585000144 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 871585000145 FMN binding site [chemical binding]; other site 871585000146 active site 871585000147 catalytic residues [active] 871585000148 substrate binding site [chemical binding]; other site 871585000149 potential frameshift: common BLAST hit: gi|215484477|ref|YP_002326712.1| Cytochrome C assembly family protein 871585000150 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 871585000151 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 871585000152 signal recognition particle protein; Provisional; Region: PRK10867 871585000153 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 871585000154 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 871585000155 GTP binding site [chemical binding]; other site 871585000156 Signal peptide binding domain; Region: SRP_SPB; pfam02978 871585000157 Type III pantothenate kinase; Region: Pan_kinase; cl09130 871585000158 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 871585000159 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 871585000160 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 871585000161 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 871585000162 Transcriptional regulators [Transcription]; Region: GntR; COG1802 871585000163 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585000164 DNA-binding site [nucleotide binding]; DNA binding site 871585000165 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 871585000166 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 871585000167 Walker A/P-loop; other site 871585000168 ATP binding site [chemical binding]; other site 871585000169 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 871585000170 ABC transporter signature motif; other site 871585000171 Walker B; other site 871585000172 D-loop; other site 871585000173 H-loop/switch region; other site 871585000174 cell division protein ZipA; Provisional; Region: PRK01741 871585000175 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 871585000176 FtsZ protein binding site [polypeptide binding]; other site 871585000177 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 871585000178 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 871585000179 nucleotide binding pocket [chemical binding]; other site 871585000180 K-X-D-G motif; other site 871585000181 catalytic site [active] 871585000182 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 871585000183 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 871585000184 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 871585000185 Dimer interface [polypeptide binding]; other site 871585000186 BRCT sequence motif; other site 871585000187 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 871585000188 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 871585000189 heme binding site [chemical binding]; other site 871585000190 ferroxidase pore; other site 871585000191 ferroxidase diiron center [ion binding]; other site 871585000192 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 871585000193 putative substrate translocation pore; other site 871585000194 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 871585000195 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 871585000196 active site 871585000197 homotetramer interface [polypeptide binding]; other site 871585000198 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 871585000199 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 871585000200 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 871585000201 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 871585000202 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 871585000203 inhibitor-cofactor binding pocket; inhibition site 871585000204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585000205 catalytic residue [active] 871585000206 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 871585000207 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 871585000208 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871585000209 catalytic residue [active] 871585000210 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 871585000211 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 871585000212 S-adenosylmethionine binding site [chemical binding]; other site 871585000213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585000214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585000215 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 871585000216 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 871585000217 RNA binding surface [nucleotide binding]; other site 871585000218 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 871585000219 probable active site [active] 871585000220 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 871585000221 ScpA/B protein; Region: ScpA_ScpB; cl00598 871585000222 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 871585000223 Protein of unknown function, DUF462; Region: DUF462; cl01190 871585000224 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 871585000225 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 871585000226 Acyl transferase domain; Region: Acyl_transf_1; cl08282 871585000227 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 871585000228 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 871585000229 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 871585000230 NAD(P) binding site [chemical binding]; other site 871585000231 homotetramer interface [polypeptide binding]; other site 871585000232 homodimer interface [polypeptide binding]; other site 871585000233 active site 871585000234 Phosphopantetheine attachment site; Region: PP-binding; cl09936 871585000235 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 871585000236 BON domain; Region: BON; cl02771 871585000237 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 871585000238 putative peptidoglycan binding site; other site 871585000239 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 871585000240 dimer interface [polypeptide binding]; other site 871585000241 substrate binding site [chemical binding]; other site 871585000242 ATP binding site [chemical binding]; other site 871585000243 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 871585000244 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 871585000245 motif II; other site 871585000246 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 871585000247 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 871585000248 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 871585000249 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 871585000250 potential frameshift: common BLAST hit: gi|184157103|ref|YP_001845442.1| membrane-anchored protein 871585000251 GDYXXLXY protein; Region: GDYXXLXY; cl02066 871585000252 GDYXXLXY protein; Region: GDYXXLXY; cl02066 871585000253 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 871585000254 tetramerization interface [polypeptide binding]; other site 871585000255 active site 871585000256 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 871585000257 putative active site [active] 871585000258 catalytic residue [active] 871585000259 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 871585000260 5S rRNA interface [nucleotide binding]; other site 871585000261 CTC domain interface [polypeptide binding]; other site 871585000262 L16 interface [polypeptide binding]; other site 871585000263 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 871585000264 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 871585000265 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871585000266 active site 871585000267 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 871585000268 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 871585000269 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 871585000270 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 871585000271 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 871585000272 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 871585000273 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 871585000274 binding surface 871585000275 TPR motif; other site 871585000276 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 871585000277 binding surface 871585000278 TPR motif; other site 871585000279 potential frameshift: common BLAST hit: gi|299771334|ref|YP_003733360.1| glutamyl-tRNA reductase 871585000280 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 871585000281 tRNA; other site 871585000282 putative tRNA binding site [nucleotide binding]; other site 871585000283 putative NADP binding site [chemical binding]; other site 871585000284 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 871585000285 DNA primase; Validated; Region: dnaG; PRK05667 871585000286 CHC2 zinc finger; Region: zf-CHC2; cl15369 871585000287 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 871585000288 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 871585000289 active site 871585000290 metal binding site [ion binding]; metal-binding site 871585000291 interdomain interaction site; other site 871585000292 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 871585000293 Outer membrane lipoprotein; Region: YfiO; pfam13525 871585000294 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 871585000295 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 871585000296 RNA binding surface [nucleotide binding]; other site 871585000297 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 871585000298 active site 871585000299 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 871585000300 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585000301 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 871585000302 SmpB-tmRNA interface; other site 871585000303 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 871585000304 active site 871585000305 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 871585000306 transcriptional activator TtdR; Provisional; Region: PRK09801 871585000307 Helix-turn-helix domains; Region: HTH; cl00088 871585000308 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 871585000309 putative effector binding pocket; other site 871585000310 putative dimerization interface [polypeptide binding]; other site 871585000311 tartrate dehydrogenase; Provisional; Region: PRK08194 871585000312 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 871585000313 BCCT family transporter; Region: BCCT; cl00569 871585000314 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 871585000315 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 871585000316 substrate binding pocket [chemical binding]; other site 871585000317 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 871585000318 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 871585000319 [2Fe-2S] cluster binding site [ion binding]; other site 871585000320 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 871585000321 putative alpha subunit interface [polypeptide binding]; other site 871585000322 putative active site [active] 871585000323 putative substrate binding site [chemical binding]; other site 871585000324 Fe binding site [ion binding]; other site 871585000325 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585000326 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 871585000327 tetramerization interface [polypeptide binding]; other site 871585000328 NAD(P) binding site [chemical binding]; other site 871585000329 catalytic residues [active] 871585000330 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 871585000331 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 871585000332 FMN-binding pocket [chemical binding]; other site 871585000333 flavin binding motif; other site 871585000334 phosphate binding motif [ion binding]; other site 871585000335 beta-alpha-beta structure motif; other site 871585000336 NAD binding pocket [chemical binding]; other site 871585000337 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 871585000338 catalytic loop [active] 871585000339 iron binding site [ion binding]; other site 871585000340 NAD synthetase; Provisional; Region: PRK13981 871585000341 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 871585000342 multimer interface [polypeptide binding]; other site 871585000343 active site 871585000344 catalytic triad [active] 871585000345 protein interface 1 [polypeptide binding]; other site 871585000346 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 871585000347 homodimer interface [polypeptide binding]; other site 871585000348 NAD binding pocket [chemical binding]; other site 871585000349 ATP binding pocket [chemical binding]; other site 871585000350 Mg binding site [ion binding]; other site 871585000351 active-site loop [active] 871585000352 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 871585000353 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 871585000354 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 871585000355 dimer interface [polypeptide binding]; other site 871585000356 active site 871585000357 EcsC protein family; Region: EcsC; pfam12787 871585000358 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 871585000359 S17 interaction site [polypeptide binding]; other site 871585000360 S8 interaction site; other site 871585000361 16S rRNA interaction site [nucleotide binding]; other site 871585000362 streptomycin interaction site [chemical binding]; other site 871585000363 23S rRNA interaction site [nucleotide binding]; other site 871585000364 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 871585000365 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 871585000366 elongation factor G; Reviewed; Region: PRK00007 871585000367 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 871585000368 G1 box; other site 871585000369 putative GEF interaction site [polypeptide binding]; other site 871585000370 GTP/Mg2+ binding site [chemical binding]; other site 871585000371 Switch I region; other site 871585000372 G2 box; other site 871585000373 G3 box; other site 871585000374 Switch II region; other site 871585000375 G4 box; other site 871585000376 G5 box; other site 871585000377 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 871585000378 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 871585000379 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 871585000380 elongation factor Tu; Reviewed; Region: PRK00049 871585000381 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 871585000382 G1 box; other site 871585000383 GEF interaction site [polypeptide binding]; other site 871585000384 GTP/Mg2+ binding site [chemical binding]; other site 871585000385 Switch I region; other site 871585000386 G2 box; other site 871585000387 G3 box; other site 871585000388 Switch II region; other site 871585000389 G4 box; other site 871585000390 G5 box; other site 871585000391 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 871585000392 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 871585000393 Antibiotic Binding Site [chemical binding]; other site 871585000394 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 871585000395 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 871585000396 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 871585000397 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 871585000398 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 871585000399 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585000400 Coenzyme A binding pocket [chemical binding]; other site 871585000401 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 871585000402 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585000403 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585000404 thioredoxin reductase; Provisional; Region: PRK10262 871585000405 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585000406 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 871585000407 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 871585000408 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585000409 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 871585000410 LysE type translocator; Region: LysE; cl00565 871585000411 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 871585000412 Septum formation topological specificity factor MinE; Region: MinE; cl00538 871585000413 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 871585000414 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 871585000415 Switch I; other site 871585000416 Switch II; other site 871585000417 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 871585000418 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 871585000419 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 871585000420 putative acyl-acceptor binding pocket; other site 871585000421 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 871585000422 ligand binding site [chemical binding]; other site 871585000423 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 871585000424 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585000425 Family description; Region: UvrD_C_2; cl15862 871585000426 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 871585000427 trimer interface [polypeptide binding]; other site 871585000428 active site 871585000429 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 871585000430 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 871585000431 active site 871585000432 substrate binding site [chemical binding]; other site 871585000433 metal binding site [ion binding]; metal-binding site 871585000434 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 871585000435 feedback inhibition sensing region; other site 871585000436 homohexameric interface [polypeptide binding]; other site 871585000437 nucleotide binding site [chemical binding]; other site 871585000438 N-acetyl-L-glutamate binding site [chemical binding]; other site 871585000439 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585000440 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 871585000441 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 871585000442 putative active site [active] 871585000443 putative dimer interface [polypeptide binding]; other site 871585000444 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 871585000445 octamerization interface [polypeptide binding]; other site 871585000446 diferric-oxygen binding site [ion binding]; other site 871585000447 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 871585000448 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 871585000449 ferric uptake regulator; Provisional; Region: fur; PRK09462 871585000450 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 871585000451 metal binding site 2 [ion binding]; metal-binding site 871585000452 putative DNA binding helix; other site 871585000453 metal binding site 1 [ion binding]; metal-binding site 871585000454 dimer interface [polypeptide binding]; other site 871585000455 structural Zn2+ binding site [ion binding]; other site 871585000456 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 871585000457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585000458 Walker A motif; other site 871585000459 ATP binding site [chemical binding]; other site 871585000460 Walker B motif; other site 871585000461 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 871585000462 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 871585000463 Walker A motif; other site 871585000464 ATP binding site [chemical binding]; other site 871585000465 Walker B motif; other site 871585000466 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 871585000467 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 871585000468 catalytic residue [active] 871585000469 exonuclease subunit SbcC; Provisional; Region: PRK10246 871585000470 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585000471 Walker A/P-loop; other site 871585000472 ATP binding site [chemical binding]; other site 871585000473 Q-loop/lid; other site 871585000474 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 871585000475 exonuclease subunit SbcC; Provisional; Region: PRK10246 871585000476 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 871585000477 ABC transporter signature motif; other site 871585000478 Walker B; other site 871585000479 D-loop; other site 871585000480 H-loop/switch region; other site 871585000481 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 871585000482 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 871585000483 active site 871585000484 metal binding site [ion binding]; metal-binding site 871585000485 DNA binding site [nucleotide binding] 871585000486 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 871585000487 OsmC-like protein; Region: OsmC; cl00767 871585000488 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 871585000489 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 871585000490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585000491 TIGR01777 family protein; Region: yfcH 871585000492 NAD(P) binding site [chemical binding]; other site 871585000493 active site 871585000494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585000495 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 871585000496 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 871585000497 dimer interface [polypeptide binding]; other site 871585000498 allosteric magnesium binding site [ion binding]; other site 871585000499 active site 871585000500 aspartate-rich active site metal binding site; other site 871585000501 Schiff base residues; other site 871585000502 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 871585000503 CoenzymeA binding site [chemical binding]; other site 871585000504 subunit interaction site [polypeptide binding]; other site 871585000505 PHB binding site; other site 871585000506 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 871585000507 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 871585000508 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 871585000509 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 871585000510 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871585000511 putative substrate translocation pore; other site 871585000512 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 871585000513 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 871585000514 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 871585000515 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 871585000516 HsdM N-terminal domain; Region: HsdM_N; pfam12161 871585000517 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585000518 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 871585000519 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 871585000520 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 871585000521 Uncharacterized conserved protein [Function unknown]; Region: COG3586 871585000522 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 871585000523 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 871585000524 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 871585000525 ATP binding site [chemical binding]; other site 871585000526 putative Mg++ binding site [ion binding]; other site 871585000527 Tic20-like protein; Region: Tic20; pfam09685 871585000528 outer membrane porin, OprD family; Region: OprD; pfam03573 871585000529 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 871585000530 benzoate transport; Region: 2A0115; TIGR00895 871585000531 putative substrate translocation pore; other site 871585000532 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 871585000533 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 871585000534 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 871585000535 inhibitor site; inhibition site 871585000536 active site 871585000537 dimer interface [polypeptide binding]; other site 871585000538 catalytic residue [active] 871585000539 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585000540 Helix-turn-helix domains; Region: HTH; cl00088 871585000541 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 871585000542 putative dimerization interface [polypeptide binding]; other site 871585000543 RNA polymerase sigma factor; Reviewed; Region: PRK12523 871585000544 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871585000545 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 871585000546 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 871585000547 FecR protein; Region: FecR; pfam04773 871585000548 Secretin and TonB N terminus short domain; Region: STN; cl06624 871585000549 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 871585000550 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 871585000551 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 871585000552 TPR repeat; Region: TPR_11; pfam13414 871585000553 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 871585000554 Gram-negative bacterial tonB protein; Region: TonB; cl10048 871585000555 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; cd00232 871585000556 heme binding pocket [chemical binding]; other site 871585000557 heme ligand [chemical binding]; other site 871585000558 Protein of unknown function (DUF454); Region: DUF454; cl01063 871585000559 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 871585000560 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 871585000561 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 871585000562 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 871585000563 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 871585000564 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 871585000565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585000566 Predicted dehydrogenase [General function prediction only]; Region: COG0579 871585000567 choline dehydrogenase; Validated; Region: PRK02106 871585000568 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 871585000569 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585000570 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 871585000571 tetrameric interface [polypeptide binding]; other site 871585000572 NAD binding site [chemical binding]; other site 871585000573 catalytic residues [active] 871585000574 transcriptional regulator BetI; Validated; Region: PRK00767 871585000575 Helix-turn-helix domains; Region: HTH; cl00088 871585000576 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 871585000577 BCCT family transporter; Region: BCCT; cl00569 871585000578 BCCT family transporter; Region: BCCT; cl00569 871585000579 MarC family integral membrane protein; Region: MarC; cl00919 871585000580 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 871585000581 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585000582 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 871585000583 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 871585000584 YaeQ protein; Region: YaeQ; cl01913 871585000585 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 871585000586 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 871585000587 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 871585000588 putative active site [active] 871585000589 putative metal binding site [ion binding]; other site 871585000590 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 871585000591 N-glycosyltransferase; Provisional; Region: PRK11204 871585000592 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 871585000593 DXD motif; other site 871585000594 PgaD-like protein; Region: PgaD; cl14676 871585000595 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 871585000596 substrate binding site [chemical binding]; other site 871585000597 oxyanion hole (OAH) forming residues; other site 871585000598 trimer interface [polypeptide binding]; other site 871585000599 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 871585000600 Transcriptional regulator [Transcription]; Region: IclR; COG1414 871585000601 Helix-turn-helix domains; Region: HTH; cl00088 871585000602 Bacterial transcriptional regulator; Region: IclR; pfam01614 871585000603 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 871585000604 [2Fe-2S] cluster binding site [ion binding]; other site 871585000605 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 871585000606 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 871585000607 [2Fe-2S] cluster binding site [ion binding]; other site 871585000608 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 871585000609 hydrophobic ligand binding site; other site 871585000610 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 871585000611 classical (c) SDRs; Region: SDR_c; cd05233 871585000612 NAD(P) binding site [chemical binding]; other site 871585000613 active site 871585000614 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 871585000615 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 871585000616 putative active site [active] 871585000617 putative metal binding site [ion binding]; other site 871585000618 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 871585000619 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585000620 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 871585000621 D-galactonate transporter; Region: 2A0114; TIGR00893 871585000622 putative substrate translocation pore; other site 871585000623 Cupin domain; Region: Cupin_2; cl09118 871585000624 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585000625 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 871585000626 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 871585000627 short chain dehydrogenase; Provisional; Region: PRK07062 871585000628 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 871585000629 putative NAD(P) binding site [chemical binding]; other site 871585000630 putative active site [active] 871585000631 L-aspartate dehydrogenase; Provisional; Region: PRK13303 871585000632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585000633 Domain of unknown function DUF108; Region: DUF108; pfam01958 871585000634 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585000635 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 871585000636 NAD(P) binding site [chemical binding]; other site 871585000637 catalytic residues [active] 871585000638 hypothetical protein; Provisional; Region: PRK07064 871585000639 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 871585000640 PYR/PP interface [polypeptide binding]; other site 871585000641 dimer interface [polypeptide binding]; other site 871585000642 TPP binding site [chemical binding]; other site 871585000643 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 871585000644 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 871585000645 TPP-binding site [chemical binding]; other site 871585000646 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 871585000647 metabolite-proton symporter; Region: 2A0106; TIGR00883 871585000648 putative substrate translocation pore; other site 871585000649 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 871585000650 active site 871585000651 catalytic residues [active] 871585000652 metal binding site [ion binding]; metal-binding site 871585000653 Glutaminase; Region: Glutaminase; cl00907 871585000654 Helix-turn-helix domain; Region: HTH_18; pfam12833 871585000655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585000656 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 871585000657 putative substrate translocation pore; other site 871585000658 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871585000659 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 871585000660 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 871585000661 active site 871585000662 catalytic residues [active] 871585000663 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 871585000664 Helix-turn-helix domains; Region: HTH; cl00088 871585000665 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 871585000666 dimerization interface [polypeptide binding]; other site 871585000667 substrate binding pocket [chemical binding]; other site 871585000668 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 871585000669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585000670 NAD(P) binding site [chemical binding]; other site 871585000671 active site 871585000672 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 871585000673 D-galactonate transporter; Region: 2A0114; TIGR00893 871585000674 putative substrate translocation pore; other site 871585000675 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 871585000676 TPP-binding site [chemical binding]; other site 871585000677 dimer interface [polypeptide binding]; other site 871585000678 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 871585000679 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 871585000680 PYR/PP interface [polypeptide binding]; other site 871585000681 dimer interface [polypeptide binding]; other site 871585000682 TPP binding site [chemical binding]; other site 871585000683 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 871585000684 potential frameshift: common BLAST hit: gi|215484308|ref|YP_002326537.1| B12-dependent methionine synthase 871585000685 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 871585000686 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 871585000687 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 871585000688 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 871585000689 substrate binding pocket [chemical binding]; other site 871585000690 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 871585000691 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 871585000692 B12 binding site [chemical binding]; other site 871585000693 cobalt ligand [ion binding]; other site 871585000694 Phosphate transporter family; Region: PHO4; cl00396 871585000695 Phosphate transporter family; Region: PHO4; cl00396 871585000696 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 871585000697 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871585000698 catalytic residue [active] 871585000699 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 871585000700 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 871585000701 Sulfatase; Region: Sulfatase; cl10460 871585000702 Rhomboid family; Region: Rhomboid; cl11446 871585000703 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 871585000704 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 871585000705 NifU-like domain; Region: NifU; cl00484 871585000706 outer membrane receptor FepA; Provisional; Region: PRK13524 871585000707 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 871585000708 N-terminal plug; other site 871585000709 ligand-binding site [chemical binding]; other site 871585000710 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 871585000711 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585000712 nucleophilic elbow; other site 871585000713 catalytic triad; other site 871585000714 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 871585000715 active site clefts [active] 871585000716 zinc binding site [ion binding]; other site 871585000717 dimer interface [polypeptide binding]; other site 871585000718 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 871585000719 active site 871585000720 catalytic triad [active] 871585000721 oxyanion hole [active] 871585000722 switch loop; other site 871585000723 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 871585000724 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 871585000725 Walker A/P-loop; other site 871585000726 ATP binding site [chemical binding]; other site 871585000727 Q-loop/lid; other site 871585000728 ABC transporter signature motif; other site 871585000729 Walker B; other site 871585000730 D-loop; other site 871585000731 H-loop/switch region; other site 871585000732 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 871585000733 FtsX-like permease family; Region: FtsX; cl15850 871585000734 Rhomboid family; Region: Rhomboid; cl11446 871585000735 Transglycosylase; Region: Transgly; cl07896 871585000736 polyphosphate kinase; Provisional; Region: PRK05443 871585000737 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 871585000738 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 871585000739 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 871585000740 putative active site [active] 871585000741 catalytic site [active] 871585000742 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 871585000743 putative active site [active] 871585000744 putative domain interface [polypeptide binding]; other site 871585000745 catalytic site [active] 871585000746 Sporulation related domain; Region: SPOR; cl10051 871585000747 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 871585000748 Helix-turn-helix domains; Region: HTH; cl00088 871585000749 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 871585000750 dimerization interface [polypeptide binding]; other site 871585000751 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585000752 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 871585000753 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 871585000754 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585000755 Rubredoxin [Energy production and conversion]; Region: COG1773 871585000756 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 871585000757 iron binding site [ion binding]; other site 871585000758 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 871585000759 putative hydrophobic ligand binding site [chemical binding]; other site 871585000760 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 871585000761 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 871585000762 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 871585000763 dimer interface [polypeptide binding]; other site 871585000764 putative anticodon binding site; other site 871585000765 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 871585000766 motif 1; other site 871585000767 active site 871585000768 motif 2; other site 871585000769 motif 3; other site 871585000770 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 871585000771 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 871585000772 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 871585000773 Active Sites [active] 871585000774 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 871585000775 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 871585000776 CysD dimerization site [polypeptide binding]; other site 871585000777 G1 box; other site 871585000778 putative GEF interaction site [polypeptide binding]; other site 871585000779 GTP/Mg2+ binding site [chemical binding]; other site 871585000780 Switch I region; other site 871585000781 G2 box; other site 871585000782 G3 box; other site 871585000783 Switch II region; other site 871585000784 G4 box; other site 871585000785 G5 box; other site 871585000786 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 871585000787 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 871585000788 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 871585000789 Citrate transporter; Region: CitMHS; pfam03600 871585000790 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 871585000791 transmembrane helices; other site 871585000792 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 871585000793 Domain of unknown function DUF21; Region: DUF21; pfam01595 871585000794 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 871585000795 Transporter associated domain; Region: CorC_HlyC; cl08393 871585000796 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585000797 Helix-turn-helix domains; Region: HTH; cl00088 871585000798 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 871585000799 substrate binding pocket [chemical binding]; other site 871585000800 dimerization interface [polypeptide binding]; other site 871585000801 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 871585000802 tetramer interface [polypeptide binding]; other site 871585000803 active site 871585000804 Mg2+/Mn2+ binding site [ion binding]; other site 871585000805 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 871585000806 NlpE N-terminal domain; Region: NlpE; cl01138 871585000807 UreD urease accessory protein; Region: UreD; cl00530 871585000808 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 871585000809 alpha-gamma subunit interface [polypeptide binding]; other site 871585000810 beta-gamma subunit interface [polypeptide binding]; other site 871585000811 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 871585000812 gamma-beta subunit interface [polypeptide binding]; other site 871585000813 alpha-beta subunit interface [polypeptide binding]; other site 871585000814 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 871585000815 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585000816 urease subunit alpha; Reviewed; Region: ureC; PRK13207 871585000817 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 871585000818 subunit interactions [polypeptide binding]; other site 871585000819 active site 871585000820 flap region; other site 871585000821 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 871585000822 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 871585000823 dimer interface [polypeptide binding]; other site 871585000824 catalytic residues [active] 871585000825 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 871585000826 UreF; Region: UreF; pfam01730 871585000827 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585000828 HupE / UreJ protein; Region: HupE_UreJ; cl01011 871585000829 Methyltransferase domain; Region: Methyltransf_31; pfam13847 871585000830 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 871585000831 S-adenosylmethionine binding site [chemical binding]; other site 871585000832 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 871585000833 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 871585000834 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585000835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 871585000836 adenylate kinase; Reviewed; Region: adk; PRK00279 871585000837 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 871585000838 AMP-binding site [chemical binding]; other site 871585000839 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 871585000840 endonuclease III; Provisional; Region: PRK10702 871585000841 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 871585000842 minor groove reading motif; other site 871585000843 helix-hairpin-helix signature motif; other site 871585000844 substrate binding pocket [chemical binding]; other site 871585000845 active site 871585000846 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 871585000847 electron transport complex protein RnfB; Provisional; Region: PRK05113 871585000848 Putative Fe-S cluster; Region: FeS; pfam04060 871585000849 4Fe-4S binding domain; Region: Fer4; cl02805 871585000850 glutamate dehydrogenase; Provisional; Region: PRK09414 871585000851 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 871585000852 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 871585000853 NAD(P) binding site [chemical binding]; other site 871585000854 META domain; Region: META; cl01245 871585000855 META domain; Region: META; cl01245 871585000856 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 871585000857 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 871585000858 putative active site [active] 871585000859 metal binding site [ion binding]; metal-binding site 871585000860 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 871585000861 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 871585000862 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 871585000863 Found in ATP-dependent protease La (LON); Region: LON; smart00464 871585000864 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 871585000865 Walker A motif; other site 871585000866 ATP binding site [chemical binding]; other site 871585000867 Walker B motif; other site 871585000868 arginine finger; other site 871585000869 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 871585000870 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 871585000871 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 871585000872 Cell division protein ZapA; Region: ZapA; cl01146 871585000873 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 871585000874 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 871585000875 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 871585000876 proline aminopeptidase P II; Provisional; Region: PRK10879 871585000877 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 871585000878 active site 871585000879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585000880 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 871585000881 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 871585000882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585000883 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 871585000884 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 871585000885 DNA binding residues [nucleotide binding] 871585000886 Cation efflux family; Region: Cation_efflux; cl00316 871585000887 LysE type translocator; Region: LysE; cl00565 871585000888 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 871585000889 Helix-turn-helix domains; Region: HTH; cl00088 871585000890 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 871585000891 dimerization interface [polypeptide binding]; other site 871585000892 NMT1-like family; Region: NMT1_2; cl15260 871585000893 Predicted methyltransferases [General function prediction only]; Region: COG0313 871585000894 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 871585000895 Restriction endonuclease; Region: Mrr_cat; cl00516 871585000896 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 871585000897 BON domain; Region: BON; cl02771 871585000898 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 871585000899 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 871585000900 substrate binding pocket [chemical binding]; other site 871585000901 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 871585000902 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 871585000903 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 871585000904 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 871585000905 putative NADH binding site [chemical binding]; other site 871585000906 putative active site [active] 871585000907 nudix motif; other site 871585000908 putative metal binding site [ion binding]; other site 871585000909 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 871585000910 RNA/DNA hybrid binding site [nucleotide binding]; other site 871585000911 active site 871585000912 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 871585000913 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 871585000914 active site 871585000915 catalytic site [active] 871585000916 substrate binding site [chemical binding]; other site 871585000917 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 871585000918 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 871585000919 N-acetyl-D-glucosamine binding site [chemical binding]; other site 871585000920 catalytic residue [active] 871585000921 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 871585000922 putative peptidoglycan binding site; other site 871585000923 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 871585000924 putative peptidoglycan binding site; other site 871585000925 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 871585000926 putative peptidoglycan binding site; other site 871585000927 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 871585000928 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 871585000929 putative peptidoglycan binding site; other site 871585000930 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 871585000931 putative peptidoglycan binding site; other site 871585000932 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 871585000933 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 871585000934 putative peptidoglycan binding site; other site 871585000935 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 871585000936 putative peptidoglycan binding site; other site 871585000937 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 871585000938 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 871585000939 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 871585000940 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 871585000941 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 871585000942 dimer interface [polypeptide binding]; other site 871585000943 conserved gate region; other site 871585000944 putative PBP binding loops; other site 871585000945 ABC-ATPase subunit interface; other site 871585000946 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 871585000947 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 871585000948 dimer interface [polypeptide binding]; other site 871585000949 conserved gate region; other site 871585000950 putative PBP binding loops; other site 871585000951 ABC-ATPase subunit interface; other site 871585000952 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 871585000953 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 871585000954 Walker A/P-loop; other site 871585000955 ATP binding site [chemical binding]; other site 871585000956 Q-loop/lid; other site 871585000957 ABC transporter signature motif; other site 871585000958 Walker B; other site 871585000959 D-loop; other site 871585000960 H-loop/switch region; other site 871585000961 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 871585000962 Walker A/P-loop; other site 871585000963 ATP binding site [chemical binding]; other site 871585000964 Q-loop/lid; other site 871585000965 ABC transporter signature motif; other site 871585000966 Walker B; other site 871585000967 D-loop; other site 871585000968 H-loop/switch region; other site 871585000969 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 871585000970 putative active site [active] 871585000971 putative FMN binding site [chemical binding]; other site 871585000972 putative substrate binding site [chemical binding]; other site 871585000973 putative catalytic residue [active] 871585000974 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 871585000975 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 871585000976 N-terminal plug; other site 871585000977 ligand-binding site [chemical binding]; other site 871585000978 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 871585000979 dimer interface [polypeptide binding]; other site 871585000980 catalytic site [active] 871585000981 putative active site [active] 871585000982 putative substrate binding site [chemical binding]; other site 871585000983 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 871585000984 active site 871585000985 substrate binding pocket [chemical binding]; other site 871585000986 dimer interface [polypeptide binding]; other site 871585000987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871585000988 metal binding site [ion binding]; metal-binding site 871585000989 active site 871585000990 I-site; other site 871585000991 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 871585000992 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 871585000993 ANP binding site [chemical binding]; other site 871585000994 Substrate Binding Site II [chemical binding]; other site 871585000995 Substrate Binding Site I [chemical binding]; other site 871585000996 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 871585000997 active site 871585000998 FMN binding site [chemical binding]; other site 871585000999 2,4-decadienoyl-CoA binding site; other site 871585001000 catalytic residue [active] 871585001001 4Fe-4S cluster binding site [ion binding]; other site 871585001002 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 871585001003 Peptidase family M48; Region: Peptidase_M48; cl12018 871585001004 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 871585001005 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585001006 Helix-turn-helix domains; Region: HTH; cl00088 871585001007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 871585001008 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 871585001009 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 871585001010 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 871585001011 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 871585001012 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 871585001013 aromatic amino acid transporter; Provisional; Region: PRK10238 871585001014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001015 FAD dependent oxidoreductase; Region: DAO; pfam01266 871585001016 amino acid transporter; Region: 2A0306; TIGR00909 871585001017 Spore germination protein; Region: Spore_permease; cl15802 871585001018 Cache domain; Region: Cache_1; pfam02743 871585001019 Transcriptional regulators [Transcription]; Region: FadR; COG2186 871585001020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585001021 DNA-binding site [nucleotide binding]; DNA binding site 871585001022 FCD domain; Region: FCD; cl11656 871585001023 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 871585001024 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 871585001025 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585001026 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 871585001027 tetrameric interface [polypeptide binding]; other site 871585001028 NAD binding site [chemical binding]; other site 871585001029 catalytic residues [active] 871585001030 substrate binding site [chemical binding]; other site 871585001031 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871585001032 Helix-turn-helix domains; Region: HTH; cl00088 871585001033 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 871585001034 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 871585001035 inhibitor-cofactor binding pocket; inhibition site 871585001036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585001037 catalytic residue [active] 871585001038 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 871585001039 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 871585001040 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 871585001041 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 871585001042 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 871585001043 NAD(P) binding site [chemical binding]; other site 871585001044 catalytic residues [active] 871585001045 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585001046 Helix-turn-helix domains; Region: HTH; cl00088 871585001047 Helix-turn-helix domain; Region: HTH_18; pfam12833 871585001048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585001049 EamA-like transporter family; Region: EamA; cl01037 871585001050 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585001051 galactarate dehydratase; Region: galactar-dH20; TIGR03248 871585001052 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 871585001053 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 871585001054 D-galactonate transporter; Region: 2A0114; TIGR00893 871585001055 putative substrate translocation pore; other site 871585001056 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 871585001057 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 871585001058 active site 871585001059 tetramer interface [polypeptide binding]; other site 871585001060 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 871585001061 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 871585001062 putative active site [active] 871585001063 catalytic residue [active] 871585001064 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585001065 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 871585001066 dimer interface [polypeptide binding]; other site 871585001067 NADP binding site [chemical binding]; other site 871585001068 catalytic residues [active] 871585001069 Transcriptional regulators [Transcription]; Region: FadR; COG2186 871585001070 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585001071 DNA-binding site [nucleotide binding]; DNA binding site 871585001072 FCD domain; Region: FCD; cl11656 871585001073 Tannase and feruloyl esterase; Region: Tannase; pfam07519 871585001074 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 871585001075 CoenzymeA binding site [chemical binding]; other site 871585001076 subunit interaction site [polypeptide binding]; other site 871585001077 PHB binding site; other site 871585001078 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 871585001079 outer membrane porin, OprD family; Region: OprD; pfam03573 871585001080 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585001081 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585001082 active site 871585001083 feruloyl-CoA synthase; Reviewed; Region: PRK08180 871585001084 AMP-binding enzyme; Region: AMP-binding; cl15778 871585001085 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585001086 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 871585001087 NAD(P) binding site [chemical binding]; other site 871585001088 catalytic residues [active] 871585001089 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 871585001090 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 871585001091 substrate binding site [chemical binding]; other site 871585001092 oxyanion hole (OAH) forming residues; other site 871585001093 trimer interface [polypeptide binding]; other site 871585001094 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 871585001095 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 871585001096 putative substrate translocation pore; other site 871585001097 Helix-turn-helix domains; Region: HTH; cl00088 871585001098 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585001099 DNA-binding site [nucleotide binding]; DNA binding site 871585001100 FCD domain; Region: FCD; cl11656 871585001101 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 871585001102 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 871585001103 FMN-binding pocket [chemical binding]; other site 871585001104 flavin binding motif; other site 871585001105 phosphate binding motif [ion binding]; other site 871585001106 beta-alpha-beta structure motif; other site 871585001107 NAD binding pocket [chemical binding]; other site 871585001108 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 871585001109 catalytic loop [active] 871585001110 iron binding site [ion binding]; other site 871585001111 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 871585001112 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 871585001113 iron-sulfur cluster [ion binding]; other site 871585001114 [2Fe-2S] cluster binding site [ion binding]; other site 871585001115 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 871585001116 alpha subunit interface [polypeptide binding]; other site 871585001117 active site 871585001118 substrate binding site [chemical binding]; other site 871585001119 Fe binding site [ion binding]; other site 871585001120 outer membrane porin, OprD family; Region: OprD; pfam03573 871585001121 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 871585001122 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 871585001123 Sulfatase; Region: Sulfatase; cl10460 871585001124 benzoate transport; Region: 2A0115; TIGR00895 871585001125 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 871585001126 putative substrate translocation pore; other site 871585001127 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 871585001128 outer membrane porin, OprD family; Region: OprD; pfam03573 871585001129 TIGR03549 family protein; Region: TIGR03549 871585001130 OsmC-like protein; Region: OsmC; cl00767 871585001131 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 871585001132 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 871585001133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001134 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 871585001135 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 871585001136 classical (c) SDRs; Region: SDR_c; cd05233 871585001137 short chain dehydrogenase; Provisional; Region: PRK05650 871585001138 NAD(P) binding site [chemical binding]; other site 871585001139 active site 871585001140 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 871585001141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001142 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585001143 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585001144 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585001145 Fumarase C-terminus; Region: Fumerase_C; cl00795 871585001146 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 871585001147 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 871585001148 D-galactonate transporter; Region: 2A0114; TIGR00893 871585001149 putative substrate translocation pore; other site 871585001150 Helix-turn-helix domains; Region: HTH; cl00088 871585001151 transcriptional activator TtdR; Provisional; Region: PRK09801 871585001152 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 871585001153 putative effector binding pocket; other site 871585001154 putative dimerization interface [polypeptide binding]; other site 871585001155 Leucine carboxyl methyltransferase; Region: LCM; cl01306 871585001156 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 871585001157 classical (c) SDRs; Region: SDR_c; cd05233 871585001158 short chain dehydrogenase; Provisional; Region: PRK05650 871585001159 NAD(P) binding site [chemical binding]; other site 871585001160 active site 871585001161 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 871585001162 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 871585001163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585001164 Helix-turn-helix domains; Region: HTH; cl00088 871585001165 Pirin-related protein [General function prediction only]; Region: COG1741 871585001166 Cupin domain; Region: Cupin_2; cl09118 871585001167 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 871585001168 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 871585001169 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 871585001170 active site 871585001171 purine riboside binding site [chemical binding]; other site 871585001172 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 871585001173 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 871585001174 RNA/DNA hybrid binding site [nucleotide binding]; other site 871585001175 active site 871585001176 Global regulator protein family; Region: CsrA; cl00670 871585001177 aspartate kinase; Reviewed; Region: PRK06635 871585001178 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 871585001179 putative nucleotide binding site [chemical binding]; other site 871585001180 putative catalytic residues [active] 871585001181 putative Mg ion binding site [ion binding]; other site 871585001182 putative aspartate binding site [chemical binding]; other site 871585001183 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 871585001184 putative allosteric regulatory site; other site 871585001185 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 871585001186 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 871585001187 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 871585001188 motif 1; other site 871585001189 active site 871585001190 motif 2; other site 871585001191 motif 3; other site 871585001192 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 871585001193 DHHA1 domain; Region: DHHA1; pfam02272 871585001194 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 871585001195 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001196 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 871585001197 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 871585001198 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 871585001199 dimer interface [polypeptide binding]; other site 871585001200 motif 1; other site 871585001201 active site 871585001202 motif 2; other site 871585001203 motif 3; other site 871585001204 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 871585001205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585001206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585001207 Peptidase family M48; Region: Peptidase_M48; cl12018 871585001208 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 871585001209 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 871585001210 active site 871585001211 catalytic tetrad [active] 871585001212 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 871585001213 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 871585001214 ligand binding site [chemical binding]; other site 871585001215 flexible hinge region; other site 871585001216 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 871585001217 putative switch regulator; other site 871585001218 non-specific DNA interactions [nucleotide binding]; other site 871585001219 DNA binding site [nucleotide binding] 871585001220 sequence specific DNA binding site [nucleotide binding]; other site 871585001221 putative cAMP binding site [chemical binding]; other site 871585001222 OsmC-like protein; Region: OsmC; cl00767 871585001223 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 871585001224 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585001225 Coenzyme A binding pocket [chemical binding]; other site 871585001226 Peptidase family M23; Region: Peptidase_M23; pfam01551 871585001227 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 871585001228 Clp amino terminal domain; Region: Clp_N; pfam02861 871585001229 Clp amino terminal domain; Region: Clp_N; pfam02861 871585001230 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 871585001231 Walker A motif; other site 871585001232 ATP binding site [chemical binding]; other site 871585001233 Walker B motif; other site 871585001234 arginine finger; other site 871585001235 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 871585001236 Walker A motif; other site 871585001237 ATP binding site [chemical binding]; other site 871585001238 Walker B motif; other site 871585001239 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 871585001240 Competence-damaged protein; Region: CinA; cl00666 871585001241 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 871585001242 THUMP domain; Region: THUMP; cl12076 871585001243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001244 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 871585001245 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 871585001246 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 871585001247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001248 dihydroorotase; Validated; Region: pyrC; PRK09357 871585001249 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 871585001250 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 871585001251 active site 871585001252 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 871585001253 ligand binding site [chemical binding]; other site 871585001254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001255 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 871585001256 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 871585001257 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 871585001258 putative C-terminal domain interface [polypeptide binding]; other site 871585001259 putative GSH binding site (G-site) [chemical binding]; other site 871585001260 putative dimer interface [polypeptide binding]; other site 871585001261 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 871585001262 putative N-terminal domain interface [polypeptide binding]; other site 871585001263 putative dimer interface [polypeptide binding]; other site 871585001264 putative substrate binding pocket (H-site) [chemical binding]; other site 871585001265 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 871585001266 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 871585001267 Lamin Tail Domain; Region: LTD; pfam00932 871585001268 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 871585001269 generic binding surface II; other site 871585001270 generic binding surface I; other site 871585001271 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 871585001272 putative active site [active] 871585001273 putative catalytic site [active] 871585001274 putative Mg binding site IVb [ion binding]; other site 871585001275 putative phosphate binding site [ion binding]; other site 871585001276 putative DNA binding site [nucleotide binding]; other site 871585001277 putative Mg binding site IVa [ion binding]; other site 871585001278 glutathionine S-transferase; Provisional; Region: PRK10542 871585001279 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 871585001280 C-terminal domain interface [polypeptide binding]; other site 871585001281 GSH binding site (G-site) [chemical binding]; other site 871585001282 dimer interface [polypeptide binding]; other site 871585001283 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 871585001284 dimer interface [polypeptide binding]; other site 871585001285 N-terminal domain interface [polypeptide binding]; other site 871585001286 substrate binding pocket (H-site) [chemical binding]; other site 871585001287 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 871585001288 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 871585001289 catalytic residue [active] 871585001290 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 871585001291 catalytic residues [active] 871585001292 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585001293 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 871585001294 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 871585001295 S-adenosylmethionine binding site [chemical binding]; other site 871585001296 KTSC domain; Region: KTSC; pfam13619 871585001297 peroxiredoxin; Region: AhpC; TIGR03137 871585001298 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 871585001299 dimer interface [polypeptide binding]; other site 871585001300 decamer (pentamer of dimers) interface [polypeptide binding]; other site 871585001301 catalytic triad [active] 871585001302 peroxidatic and resolving cysteines [active] 871585001303 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 871585001304 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 871585001305 ATP binding site [chemical binding]; other site 871585001306 putative Mg++ binding site [ion binding]; other site 871585001307 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 871585001308 nucleotide binding region [chemical binding]; other site 871585001309 ATP-binding site [chemical binding]; other site 871585001310 Helicase associated domain (HA2); Region: HA2; cl04503 871585001311 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 871585001312 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 871585001313 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 871585001314 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 871585001315 dimer interface [polypeptide binding]; other site 871585001316 active site 871585001317 CoA binding pocket [chemical binding]; other site 871585001318 outer membrane porin, OprD family; Region: OprD; pfam03573 871585001319 benzoate transport; Region: 2A0115; TIGR00895 871585001320 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 871585001321 putative substrate translocation pore; other site 871585001322 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 871585001323 putative substrate translocation pore; other site 871585001324 benzoate transporter; Region: benE; TIGR00843 871585001325 Benzoate membrane transport protein; Region: BenE; pfam03594 871585001326 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 871585001327 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 871585001328 putative NAD(P) binding site [chemical binding]; other site 871585001329 active site 871585001330 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 871585001331 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 871585001332 catalytic loop [active] 871585001333 iron binding site [ion binding]; other site 871585001334 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 871585001335 FAD binding pocket [chemical binding]; other site 871585001336 FAD binding motif [chemical binding]; other site 871585001337 phosphate binding motif [ion binding]; other site 871585001338 beta-alpha-beta structure motif; other site 871585001339 NAD binding pocket [chemical binding]; other site 871585001340 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 871585001341 inter-subunit interface; other site 871585001342 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 871585001343 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 871585001344 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 871585001345 putative alpha subunit interface [polypeptide binding]; other site 871585001346 putative active site [active] 871585001347 putative substrate binding site [chemical binding]; other site 871585001348 Fe binding site [ion binding]; other site 871585001349 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 871585001350 Helix-turn-helix domains; Region: HTH; cl00088 871585001351 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 871585001352 dimerization interface [polypeptide binding]; other site 871585001353 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 871585001354 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 871585001355 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 871585001356 catalytic loop [active] 871585001357 iron binding site [ion binding]; other site 871585001358 Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H...; Region: phenol_2-monooxygenase_like; cd06211 871585001359 FAD binding pocket [chemical binding]; other site 871585001360 FAD binding motif [chemical binding]; other site 871585001361 phosphate binding motif [ion binding]; other site 871585001362 beta-alpha-beta structure motif; other site 871585001363 NAD binding pocket [chemical binding]; other site 871585001364 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 871585001365 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 871585001366 dimerization interface [polypeptide binding]; other site 871585001367 putative path to active site cavity [active] 871585001368 diiron center [ion binding]; other site 871585001369 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 871585001370 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 871585001371 dimerization interface [polypeptide binding]; other site 871585001372 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 871585001373 Activator of aromatic catabolism; Region: XylR_N; pfam06505 871585001374 Heme NO binding; Region: HNOB; cl15268 871585001375 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 871585001376 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 871585001377 Walker A motif; other site 871585001378 ATP binding site [chemical binding]; other site 871585001379 Walker B motif; other site 871585001380 arginine finger; other site 871585001381 Helix-turn-helix domains; Region: HTH; cl00088 871585001382 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 871585001383 metal-binding site [ion binding] 871585001384 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 871585001385 metal-binding site [ion binding] 871585001386 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 871585001387 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 871585001388 metal-binding site [ion binding] 871585001389 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 871585001390 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 871585001391 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 871585001392 DNA binding residues [nucleotide binding] 871585001393 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 871585001394 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 871585001395 dimerization interface [polypeptide binding]; other site 871585001396 LysE type translocator; Region: LysE; cl00565 871585001397 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 871585001398 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 871585001399 generic binding surface II; other site 871585001400 generic binding surface I; other site 871585001401 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 871585001402 non-specific DNA binding site [nucleotide binding]; other site 871585001403 salt bridge; other site 871585001404 Predicted transcriptional regulator [Transcription]; Region: COG2932 871585001405 sequence-specific DNA binding site [nucleotide binding]; other site 871585001406 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 871585001407 Catalytic site [active] 871585001408 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 871585001409 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 871585001410 LysE type translocator; Region: LysE; cl00565 871585001411 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 871585001412 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 871585001413 putative acyl-acceptor binding pocket; other site 871585001414 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 871585001415 DNA-binding site [nucleotide binding]; DNA binding site 871585001416 RNA-binding motif; other site 871585001417 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 871585001418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001419 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871585001420 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 871585001421 putative DNA binding site [nucleotide binding]; other site 871585001422 putative Zn2+ binding site [ion binding]; other site 871585001423 Helix-turn-helix domains; Region: HTH; cl00088 871585001424 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 871585001425 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 871585001426 S-adenosylmethionine binding site [chemical binding]; other site 871585001427 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585001428 Helix-turn-helix domains; Region: HTH; cl00088 871585001429 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 871585001430 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 871585001431 potential frameshift: common BLAST hit: gi|299770863|ref|YP_003732889.1| putative acyl-CoA dehydrogenase-related protein 871585001432 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585001433 active site 871585001434 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 871585001435 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 871585001436 S-adenosylmethionine binding site [chemical binding]; other site 871585001437 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 871585001438 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 871585001439 active site 871585001440 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 871585001441 potential frameshift: common BLAST hit: gi|299770858|ref|YP_003732884.1| Mechanosensitive ion channel family protein 871585001442 Mechanosensitive ion channel; Region: MS_channel; pfam00924 871585001443 Mechanosensitive ion channel; Region: MS_channel; pfam00924 871585001444 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 871585001445 putative substrate translocation pore; other site 871585001446 Helix-turn-helix domains; Region: HTH; cl00088 871585001447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001448 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 871585001449 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 871585001450 active site 871585001451 HIGH motif; other site 871585001452 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 871585001453 KMSKS motif; other site 871585001454 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 871585001455 tRNA binding surface [nucleotide binding]; other site 871585001456 anticodon binding site; other site 871585001457 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 871585001458 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 871585001459 putative active site [active] 871585001460 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 871585001461 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 871585001462 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 871585001463 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 871585001464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 871585001465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 871585001466 OstA-like protein; Region: OstA; cl00844 871585001467 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 871585001468 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 871585001469 Walker A/P-loop; other site 871585001470 ATP binding site [chemical binding]; other site 871585001471 Q-loop/lid; other site 871585001472 ABC transporter signature motif; other site 871585001473 Walker B; other site 871585001474 D-loop; other site 871585001475 H-loop/switch region; other site 871585001476 potential frameshift: common BLAST hit: gi|299770835|ref|YP_003732861.1| putative outer membrane efflux protein, type I secretion protein 871585001477 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 871585001478 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 871585001479 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 871585001480 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 871585001481 putative active site [active] 871585001482 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 871585001483 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 871585001484 Walker A/P-loop; other site 871585001485 ATP binding site [chemical binding]; other site 871585001486 Q-loop/lid; other site 871585001487 ABC transporter signature motif; other site 871585001488 Walker B; other site 871585001489 D-loop; other site 871585001490 H-loop/switch region; other site 871585001491 potential frameshift: common BLAST hit: gi|299770833|ref|YP_003732859.1| protein secretion efflux system ABC transporter membrane protein 871585001492 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 871585001493 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 871585001494 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 871585001495 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 871585001496 Uncharacterized conserved protein [Function unknown]; Region: COG1739 871585001497 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 871585001498 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; cd00208 871585001499 putative trimer interface [polypeptide binding]; other site 871585001500 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 871585001501 trimer interface [polypeptide binding]; other site 871585001502 active site 871585001503 substrate binding site [chemical binding]; other site 871585001504 putative CoA binding site [chemical binding]; other site 871585001505 CoA binding site [chemical binding]; other site 871585001506 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 871585001507 Ligand Binding Site [chemical binding]; other site 871585001508 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 871585001509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 871585001511 4Fe-4S binding domain; Region: Fer4; cl02805 871585001512 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 871585001513 Predicted acetyltransferase [General function prediction only]; Region: COG3153 871585001514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585001515 Coenzyme A binding pocket [chemical binding]; other site 871585001516 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 871585001517 MutS domain I; Region: MutS_I; pfam01624 871585001518 MutS domain II; Region: MutS_II; pfam05188 871585001519 MutS family domain IV; Region: MutS_IV; pfam05190 871585001520 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 871585001521 Walker A/P-loop; other site 871585001522 ATP binding site [chemical binding]; other site 871585001523 Q-loop/lid; other site 871585001524 ABC transporter signature motif; other site 871585001525 Walker B; other site 871585001526 D-loop; other site 871585001527 H-loop/switch region; other site 871585001528 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 871585001529 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 871585001530 inhibitor-cofactor binding pocket; inhibition site 871585001531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585001532 catalytic residue [active] 871585001533 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585001534 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 871585001535 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585001536 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 871585001537 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585001538 active site 871585001539 substrate binding site [chemical binding]; other site 871585001540 Phosphotransferase enzyme family; Region: APH; pfam01636 871585001541 ATP binding site [chemical binding]; other site 871585001542 ethanolamine permease; Region: 2A0305; TIGR00908 871585001543 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 871585001544 DNA-binding site [nucleotide binding]; DNA binding site 871585001545 RNA-binding motif; other site 871585001546 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585001547 Helix-turn-helix domains; Region: HTH; cl00088 871585001548 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 871585001549 putative heme binding pocket [chemical binding]; other site 871585001550 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 871585001551 benzoate transport; Region: 2A0115; TIGR00895 871585001552 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 871585001553 putative substrate translocation pore; other site 871585001554 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 871585001555 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 871585001556 Spore Coat Protein U domain; Region: SCPU; cl02253 871585001557 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 871585001558 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 871585001559 DNA binding residues [nucleotide binding] 871585001560 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 871585001561 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 871585001562 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585001563 Helix-turn-helix domains; Region: HTH; cl00088 871585001564 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 871585001565 putative effector binding pocket; other site 871585001566 putative dimerization interface [polypeptide binding]; other site 871585001567 hypothetical protein; Provisional; Region: PRK08204 871585001568 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 871585001569 active site 871585001570 Protein of unknown function, DUF606; Region: DUF606; cl01273 871585001571 potential frameshift: common BLAST hit: gi|299770767|ref|YP_003732793.1| outer membrane receptor for ferric coprogen and ferric-rhodotorulic 871585001572 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 871585001573 Secretin and TonB N terminus short domain; Region: STN; cl06624 871585001574 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 871585001575 N-terminal plug; other site 871585001576 ligand-binding site [chemical binding]; other site 871585001577 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 871585001578 FecR protein; Region: FecR; pfam04773 871585001579 RNA polymerase sigma factor; Provisional; Region: PRK12528 871585001580 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871585001581 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 871585001582 DNA binding residues [nucleotide binding] 871585001583 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 871585001584 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 871585001585 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 871585001586 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 871585001587 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 871585001588 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 871585001589 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585001590 Helix-turn-helix domains; Region: HTH; cl00088 871585001591 LysE type translocator; Region: LysE; cl00565 871585001592 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585001593 Helix-turn-helix domains; Region: HTH; cl00088 871585001594 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 871585001595 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585001596 nucleophilic elbow; other site 871585001597 catalytic triad; other site 871585001598 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 871585001599 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_14; cd04672 871585001600 nudix motif; other site 871585001601 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 871585001602 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 871585001603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585001604 Helix-turn-helix domains; Region: HTH; cl00088 871585001605 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 871585001606 putative effector binding pocket; other site 871585001607 dimerization interface [polypeptide binding]; other site 871585001608 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 871585001609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001610 NAD(P) binding site [chemical binding]; other site 871585001611 active site 871585001612 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585001613 Helix-turn-helix domains; Region: HTH; cl00088 871585001614 Helix-turn-helix domains; Region: HTH; cl00088 871585001615 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 871585001616 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 871585001617 NADP binding site [chemical binding]; other site 871585001618 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 871585001619 DoxX; Region: DoxX; cl00976 871585001620 Protein of unknown function (DUF692); Region: DUF692; cl01263 871585001621 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 871585001622 RNA polymerase sigma factor; Provisional; Region: PRK12544 871585001623 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871585001624 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 871585001625 DNA binding residues [nucleotide binding] 871585001626 Putative zinc-finger; Region: zf-HC2; cl15806 871585001627 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585001628 Helix-turn-helix domains; Region: HTH; cl00088 871585001629 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 871585001630 dimerization interface [polypeptide binding]; other site 871585001631 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 871585001632 LamB/YcsF family; Region: LamB_YcsF; cl00664 871585001633 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 871585001634 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 871585001635 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 871585001636 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 871585001637 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 871585001638 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871585001639 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585001640 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 871585001641 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 871585001642 carboxyltransferase (CT) interaction site; other site 871585001643 biotinylation site [posttranslational modification]; other site 871585001644 potential frameshift: common BLAST hit: gi|215483938|ref|YP_002326163.1| Voltage gated chloride channel family protein 871585001645 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 871585001646 Cl- selectivity filter; other site 871585001647 pore gating glutamate residue; other site 871585001648 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 871585001649 dimer interface [polypeptide binding]; other site 871585001650 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 871585001651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585001652 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585001653 Helix-turn-helix domains; Region: HTH; cl00088 871585001654 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 871585001655 putative hydrophobic ligand binding site [chemical binding]; other site 871585001656 protein interface [polypeptide binding]; other site 871585001657 gate; other site 871585001658 aromatic amino acid exporter; Provisional; Region: PRK11689 871585001659 EamA-like transporter family; Region: EamA; cl01037 871585001660 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 871585001661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001662 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871585001663 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 871585001664 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 871585001665 NAD binding site [chemical binding]; other site 871585001666 catalytic Zn binding site [ion binding]; other site 871585001667 structural Zn binding site [ion binding]; other site 871585001668 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 871585001669 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 871585001670 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 871585001671 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 871585001672 urea carboxylase; Region: urea_carbox; TIGR02712 871585001673 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871585001674 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585001675 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 871585001676 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 871585001677 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 871585001678 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 871585001679 carboxyltransferase (CT) interaction site; other site 871585001680 biotinylation site [posttranslational modification]; other site 871585001681 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585001682 Helix-turn-helix domains; Region: HTH; cl00088 871585001683 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 871585001684 nickel responsive regulator; Provisional; Region: PRK04460 871585001685 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 871585001686 allophanate hydrolase; Provisional; Region: PRK08186 871585001687 Amidase; Region: Amidase; cl11426 871585001688 NMT1-like family; Region: NMT1_2; cl15260 871585001689 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871585001690 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 871585001691 Walker A/P-loop; other site 871585001692 ATP binding site [chemical binding]; other site 871585001693 Q-loop/lid; other site 871585001694 ABC transporter signature motif; other site 871585001695 Walker B; other site 871585001696 D-loop; other site 871585001697 H-loop/switch region; other site 871585001698 potential frameshift: common BLAST hit: gi|215483920|ref|YP_002326145.1| Taurine transport system permease protein tauC 871585001699 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 871585001700 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 871585001701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 871585001702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 871585001703 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 871585001704 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 871585001705 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 871585001706 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 871585001707 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 871585001708 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 871585001709 RHS protein; Region: RHS; pfam03527 871585001710 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 871585001711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 871585001712 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 871585001713 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 871585001714 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 871585001715 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 871585001716 Sel1 repeat; Region: Sel1; cl02723 871585001717 Sel1 repeat; Region: Sel1; cl02723 871585001718 Sel1 repeat; Region: Sel1; cl02723 871585001719 Sel1 repeat; Region: Sel1; cl02723 871585001720 Sel1 repeat; Region: Sel1; cl02723 871585001721 Sel1 repeat; Region: Sel1; cl02723 871585001722 Protein of unknown function (DUF770); Region: DUF770; cl01402 871585001723 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 871585001724 Protein of unknown function (DUF877); Region: DUF877; pfam05943 871585001725 Protein of unknown function (DUF796); Region: DUF796; cl01226 871585001726 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 871585001727 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 871585001728 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 871585001729 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 871585001730 potential frameshift: common BLAST hit: gi|299770680|ref|YP_003732706.1| type VI secretion protein IcmF 871585001731 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 871585001732 potential frameshift: common BLAST hit: gi|299770680|ref|YP_003732706.1| type VI secretion protein IcmF 871585001733 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 871585001734 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 871585001735 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 871585001736 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 871585001737 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 871585001738 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 871585001739 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 871585001740 ligand binding site [chemical binding]; other site 871585001741 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 871585001742 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 871585001743 Walker A motif; other site 871585001744 ATP binding site [chemical binding]; other site 871585001745 Walker B motif; other site 871585001746 arginine finger; other site 871585001747 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 871585001748 Walker A motif; other site 871585001749 ATP binding site [chemical binding]; other site 871585001750 Walker B motif; other site 871585001751 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 871585001752 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 871585001753 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 871585001754 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 871585001755 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 871585001756 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 871585001757 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 871585001758 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 871585001759 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 871585001760 dimerization interface [polypeptide binding]; other site 871585001761 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 871585001762 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 871585001763 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 871585001764 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 871585001765 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 871585001766 nucleoside/Zn binding site; other site 871585001767 dimer interface [polypeptide binding]; other site 871585001768 catalytic motif [active] 871585001769 putative cyanate transporter; Provisional; Region: cynX; PRK09705 871585001770 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 871585001771 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585001772 Coenzyme A binding pocket [chemical binding]; other site 871585001773 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 871585001774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585001775 DNA-binding site [nucleotide binding]; DNA binding site 871585001776 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 871585001777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585001778 homodimer interface [polypeptide binding]; other site 871585001779 catalytic residue [active] 871585001780 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 871585001781 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 871585001782 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 871585001783 DNA binding residues [nucleotide binding] 871585001784 dimer interface [polypeptide binding]; other site 871585001785 [2Fe-2S] cluster binding site [ion binding]; other site 871585001786 Domain of unknown function (DUF333); Region: DUF333; pfam03891 871585001787 Potato inhibitor I family; Region: potato_inhibit; cl15459 871585001788 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 871585001789 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 871585001790 active site 871585001791 inhibitor site; inhibition site 871585001792 dimer interface [polypeptide binding]; other site 871585001793 catalytic residue [active] 871585001794 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585001795 EamA-like transporter family; Region: EamA; cl01037 871585001796 Transcriptional regulators [Transcription]; Region: GntR; COG1802 871585001797 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585001798 DNA-binding site [nucleotide binding]; DNA binding site 871585001799 FCD domain; Region: FCD; cl11656 871585001800 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 871585001801 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 871585001802 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 871585001803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001804 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 871585001805 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 871585001806 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 871585001807 PAS fold; Region: PAS_4; pfam08448 871585001808 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 871585001809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585001810 metabolite-proton symporter; Region: 2A0106; TIGR00883 871585001811 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 871585001812 putative substrate translocation pore; other site 871585001813 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585001814 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 871585001815 dimer interface [polypeptide binding]; other site 871585001816 NADP binding site [chemical binding]; other site 871585001817 catalytic residues [active] 871585001818 amino acid transporter; Region: 2A0306; TIGR00909 871585001819 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 871585001820 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 871585001821 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 871585001822 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 871585001823 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 871585001824 substrate binding site [chemical binding]; other site 871585001825 dimer interface [polypeptide binding]; other site 871585001826 NADP binding site [chemical binding]; other site 871585001827 catalytic residues [active] 871585001828 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 871585001829 substrate binding site [chemical binding]; other site 871585001830 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 871585001831 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 871585001832 Phenylacetic acid degradation B; Region: PaaB; cl01371 871585001833 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 871585001834 Domain of unknown function DUF59; Region: DUF59; cl00941 871585001835 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 871585001836 potential frameshift: common BLAST hit: gi|299770817|ref|YP_003732843.1| flavodoxin reductase (ferredoxin-NADPH reductase) family protein 1 871585001837 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 871585001838 FAD binding pocket [chemical binding]; other site 871585001839 FAD binding motif [chemical binding]; other site 871585001840 phosphate binding motif [ion binding]; other site 871585001841 beta-alpha-beta structure motif; other site 871585001842 NAD(p) ribose binding residues [chemical binding]; other site 871585001843 NAD binding pocket [chemical binding]; other site 871585001844 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 871585001845 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 871585001846 catalytic loop [active] 871585001847 iron binding site [ion binding]; other site 871585001848 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 871585001849 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 871585001850 substrate binding site [chemical binding]; other site 871585001851 oxyanion hole (OAH) forming residues; other site 871585001852 trimer interface [polypeptide binding]; other site 871585001853 enoyl-CoA hydratase; Provisional; Region: PRK08140 871585001854 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 871585001855 substrate binding site [chemical binding]; other site 871585001856 oxyanion hole (OAH) forming residues; other site 871585001857 trimer interface [polypeptide binding]; other site 871585001858 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 871585001859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001860 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871585001861 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871585001862 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 871585001863 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 871585001864 dimer interface [polypeptide binding]; other site 871585001865 active site 871585001866 AMP-binding enzyme; Region: AMP-binding; cl15778 871585001867 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 871585001868 PaaX-like protein; Region: PaaX; pfam07848 871585001869 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 871585001870 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 871585001871 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 871585001872 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 871585001873 putative trimer interface [polypeptide binding]; other site 871585001874 putative metal binding site [ion binding]; other site 871585001875 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 871585001876 CoenzymeA binding site [chemical binding]; other site 871585001877 subunit interaction site [polypeptide binding]; other site 871585001878 PHB binding site; other site 871585001879 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 871585001880 Helix-turn-helix domains; Region: HTH; cl00088 871585001881 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585001882 Helix-turn-helix domains; Region: HTH; cl00088 871585001883 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 871585001884 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 871585001885 putative C-terminal domain interface [polypeptide binding]; other site 871585001886 putative GSH binding site (G-site) [chemical binding]; other site 871585001887 putative dimer interface [polypeptide binding]; other site 871585001888 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 871585001889 N-terminal domain interface [polypeptide binding]; other site 871585001890 dimer interface [polypeptide binding]; other site 871585001891 substrate binding pocket (H-site) [chemical binding]; other site 871585001892 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 871585001893 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585001894 DNA-binding site [nucleotide binding]; DNA binding site 871585001895 FCD domain; Region: FCD; cl11656 871585001896 Amino acid synthesis; Region: AA_synth; pfam06684 871585001897 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585001898 Flavin Reductases; Region: FlaRed; cl00801 871585001899 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 871585001900 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 871585001901 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585001902 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 871585001903 NAD(P) binding site [chemical binding]; other site 871585001904 catalytic residues [active] 871585001905 Sodium:solute symporter family; Region: SSF; cl00456 871585001906 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585001907 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 871585001908 tetramerization interface [polypeptide binding]; other site 871585001909 NAD(P) binding site [chemical binding]; other site 871585001910 catalytic residues [active] 871585001911 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 871585001912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585001913 Helix-turn-helix domains; Region: HTH; cl00088 871585001914 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 871585001915 putative effector binding pocket; other site 871585001916 putative dimerization interface [polypeptide binding]; other site 871585001917 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585001918 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 871585001919 Helix-turn-helix domains; Region: HTH; cl00088 871585001920 Bacterial transcriptional regulator; Region: IclR; pfam01614 871585001921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001922 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 871585001923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001924 alanine racemase; Reviewed; Region: PRK13340 871585001925 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 871585001926 active site 871585001927 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 871585001928 dimer interface [polypeptide binding]; other site 871585001929 substrate binding site [chemical binding]; other site 871585001930 catalytic residues [active] 871585001931 transcriptional regulator protein; Region: phnR; TIGR03337 871585001932 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585001933 DNA-binding site [nucleotide binding]; DNA binding site 871585001934 UTRA domain; Region: UTRA; cl01230 871585001935 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 871585001936 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 871585001937 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 871585001938 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585001939 Walker A/P-loop; other site 871585001940 ATP binding site [chemical binding]; other site 871585001941 Q-loop/lid; other site 871585001942 ABC transporter signature motif; other site 871585001943 Walker B; other site 871585001944 D-loop; other site 871585001945 H-loop/switch region; other site 871585001946 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 871585001947 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 871585001948 dimer interface [polypeptide binding]; other site 871585001949 conserved gate region; other site 871585001950 putative PBP binding loops; other site 871585001951 ABC-ATPase subunit interface; other site 871585001952 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 871585001953 dimer interface [polypeptide binding]; other site 871585001954 conserved gate region; other site 871585001955 putative PBP binding loops; other site 871585001956 ABC-ATPase subunit interface; other site 871585001957 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 871585001958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001959 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 871585001960 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 871585001961 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871585001962 catalytic residue [active] 871585001963 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 871585001964 benzoate transport; Region: 2A0115; TIGR00895 871585001965 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 871585001966 putative substrate translocation pore; other site 871585001967 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585001968 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585001969 active site 871585001970 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 871585001971 CoA-transferase family III; Region: CoA_transf_3; pfam02515 871585001972 Transcriptional regulator [Transcription]; Region: IclR; COG1414 871585001973 Helix-turn-helix domains; Region: HTH; cl00088 871585001974 Bacterial transcriptional regulator; Region: IclR; pfam01614 871585001975 enoyl-CoA hydratase; Provisional; Region: PRK06688 871585001976 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 871585001977 substrate binding site [chemical binding]; other site 871585001978 oxyanion hole (OAH) forming residues; other site 871585001979 trimer interface [polypeptide binding]; other site 871585001980 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 871585001981 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 871585001982 FMN binding site [chemical binding]; other site 871585001983 substrate binding site [chemical binding]; other site 871585001984 putative catalytic residue [active] 871585001985 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 871585001986 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 871585001987 putative substrate translocation pore; other site 871585001988 Transcriptional regulator [Transcription]; Region: IclR; COG1414 871585001989 Helix-turn-helix domains; Region: HTH; cl00088 871585001990 Bacterial transcriptional regulator; Region: IclR; pfam01614 871585001991 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 871585001992 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 871585001993 dimer interface [polypeptide binding]; other site 871585001994 active site 871585001995 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 871585001996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585001997 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871585001998 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871585001999 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 871585002000 classical (c) SDRs; Region: SDR_c; cd05233 871585002001 NAD(P) binding site [chemical binding]; other site 871585002002 active site 871585002003 enoyl-CoA hydratase; Provisional; Region: PRK08138 871585002004 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 871585002005 substrate binding site [chemical binding]; other site 871585002006 oxyanion hole (OAH) forming residues; other site 871585002007 trimer interface [polypeptide binding]; other site 871585002008 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585002009 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585002010 active site 871585002011 benzoate transport; Region: 2A0115; TIGR00895 871585002012 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 871585002013 putative substrate translocation pore; other site 871585002014 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 871585002015 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 871585002016 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 871585002017 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 871585002018 putative substrate translocation pore; other site 871585002019 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 871585002020 CoenzymeA binding site [chemical binding]; other site 871585002021 subunit interaction site [polypeptide binding]; other site 871585002022 PHB binding site; other site 871585002023 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 871585002024 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 871585002025 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585002026 active site 871585002027 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 871585002028 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 871585002029 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 871585002030 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 871585002031 dimer interface [polypeptide binding]; other site 871585002032 PYR/PP interface [polypeptide binding]; other site 871585002033 TPP binding site [chemical binding]; other site 871585002034 substrate binding site [chemical binding]; other site 871585002035 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 871585002036 TPP-binding site [chemical binding]; other site 871585002037 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 871585002038 transcriptional regulator; Provisional; Region: PRK10632 871585002039 Helix-turn-helix domains; Region: HTH; cl00088 871585002040 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 871585002041 putative effector binding pocket; other site 871585002042 dimerization interface [polypeptide binding]; other site 871585002043 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 871585002044 active site 871585002045 catalytic residues [active] 871585002046 metal binding site [ion binding]; metal-binding site 871585002047 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 871585002048 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871585002049 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585002050 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 871585002051 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 871585002052 carboxyltransferase (CT) interaction site; other site 871585002053 biotinylation site [posttranslational modification]; other site 871585002054 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 871585002055 substrate binding site [chemical binding]; other site 871585002056 oxyanion hole (OAH) forming residues; other site 871585002057 trimer interface [polypeptide binding]; other site 871585002058 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 871585002059 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 871585002060 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 871585002061 isovaleryl-CoA dehydrogenase; Region: PLN02519 871585002062 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 871585002063 substrate binding site [chemical binding]; other site 871585002064 FAD binding site [chemical binding]; other site 871585002065 catalytic base [active] 871585002066 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585002067 Helix-turn-helix domains; Region: HTH; cl00088 871585002068 AMP-binding domain protein; Validated; Region: PRK08315 871585002069 AMP-binding enzyme; Region: AMP-binding; cl15778 871585002070 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585002071 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 871585002072 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 871585002073 S-adenosylmethionine binding site [chemical binding]; other site 871585002074 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 871585002075 benzoate transport; Region: 2A0115; TIGR00895 871585002076 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 871585002077 putative substrate translocation pore; other site 871585002078 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 871585002079 active site 871585002080 catalytic triad [active] 871585002081 oxyanion hole [active] 871585002082 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585002083 Helix-turn-helix domains; Region: HTH; cl00088 871585002084 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 871585002085 putative effector binding pocket; other site 871585002086 dimerization interface [polypeptide binding]; other site 871585002087 Competence-damaged protein; Region: CinA; cl00666 871585002088 hydroperoxidase II; Provisional; Region: katE; PRK11249 871585002089 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 871585002090 tetramer interface [polypeptide binding]; other site 871585002091 heme binding pocket [chemical binding]; other site 871585002092 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 871585002093 domain interactions; other site 871585002094 short chain dehydrogenase; Provisional; Region: PRK06701 871585002095 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 871585002096 NAD binding site [chemical binding]; other site 871585002097 metal binding site [ion binding]; metal-binding site 871585002098 active site 871585002099 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 871585002100 Catalytic site [active] 871585002101 LysE type translocator; Region: LysE; cl00565 871585002102 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871585002103 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 871585002104 putative DNA binding site [nucleotide binding]; other site 871585002105 putative Zn2+ binding site [ion binding]; other site 871585002106 Helix-turn-helix domains; Region: HTH; cl00088 871585002107 Sodium:solute symporter family; Region: SSF; cl00456 871585002108 Sodium:solute symporter family; Region: SSF; cl00456 871585002109 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 871585002110 dimer interface [polypeptide binding]; other site 871585002111 phosphorylation site [posttranslational modification] 871585002112 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 871585002113 ATP binding site [chemical binding]; other site 871585002114 Mg2+ binding site [ion binding]; other site 871585002115 G-X-G motif; other site 871585002116 Response regulator receiver domain; Region: Response_reg; pfam00072 871585002117 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 871585002118 active site 871585002119 phosphorylation site [posttranslational modification] 871585002120 intermolecular recognition site; other site 871585002121 dimerization interface [polypeptide binding]; other site 871585002122 Response regulator receiver domain; Region: Response_reg; pfam00072 871585002123 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 871585002124 active site 871585002125 phosphorylation site [posttranslational modification] 871585002126 intermolecular recognition site; other site 871585002127 dimerization interface [polypeptide binding]; other site 871585002128 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 871585002129 DNA binding residues [nucleotide binding] 871585002130 dimerization interface [polypeptide binding]; other site 871585002131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585002132 Coenzyme A binding pocket [chemical binding]; other site 871585002133 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 871585002134 dimer interface [polypeptide binding]; other site 871585002135 conserved gate region; other site 871585002136 putative PBP binding loops; other site 871585002137 ABC-ATPase subunit interface; other site 871585002138 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 871585002139 dimer interface [polypeptide binding]; other site 871585002140 conserved gate region; other site 871585002141 putative PBP binding loops; other site 871585002142 ABC-ATPase subunit interface; other site 871585002143 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 871585002144 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 871585002145 Walker A/P-loop; other site 871585002146 ATP binding site [chemical binding]; other site 871585002147 Q-loop/lid; other site 871585002148 ABC transporter signature motif; other site 871585002149 Walker B; other site 871585002150 D-loop; other site 871585002151 H-loop/switch region; other site 871585002152 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 871585002153 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 871585002154 substrate binding pocket [chemical binding]; other site 871585002155 membrane-bound complex binding site; other site 871585002156 hinge residues; other site 871585002157 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 871585002158 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 871585002159 substrate binding pocket [chemical binding]; other site 871585002160 membrane-bound complex binding site; other site 871585002161 hinge residues; other site 871585002162 transcriptional activator TtdR; Provisional; Region: PRK09801 871585002163 Helix-turn-helix domains; Region: HTH; cl00088 871585002164 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 871585002165 putative effector binding pocket; other site 871585002166 dimerization interface [polypeptide binding]; other site 871585002167 LysE type translocator; Region: LysE; cl00565 871585002168 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 871585002169 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 871585002170 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871585002171 catalytic residue [active] 871585002172 serine acetyltransferase; Region: PLN02357 871585002173 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 871585002174 trimer interface [polypeptide binding]; other site 871585002175 active site 871585002176 substrate binding site [chemical binding]; other site 871585002177 CoA binding site [chemical binding]; other site 871585002178 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 871585002179 active site residue [active] 871585002180 short chain dehydrogenase; Provisional; Region: PRK12937 871585002181 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 871585002182 NADP binding site [chemical binding]; other site 871585002183 homodimer interface [polypeptide binding]; other site 871585002184 active site 871585002185 substrate binding site [chemical binding]; other site 871585002186 transcriptional regulator; Provisional; Region: PRK10632 871585002187 Helix-turn-helix domains; Region: HTH; cl00088 871585002188 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 871585002189 putative effector binding pocket; other site 871585002190 putative dimerization interface [polypeptide binding]; other site 871585002191 Cupin domain; Region: Cupin_2; cl09118 871585002192 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 871585002193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585002194 LysE type translocator; Region: LysE; cl00565 871585002195 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 871585002196 putative S-transferase; Provisional; Region: PRK11752 871585002197 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 871585002198 C-terminal domain interface [polypeptide binding]; other site 871585002199 GSH binding site (G-site) [chemical binding]; other site 871585002200 dimer interface [polypeptide binding]; other site 871585002201 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 871585002202 dimer interface [polypeptide binding]; other site 871585002203 N-terminal domain interface [polypeptide binding]; other site 871585002204 active site 871585002205 glutathione S-transferase; Provisional; Region: PRK15113 871585002206 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 871585002207 C-terminal domain interface [polypeptide binding]; other site 871585002208 GSH binding site (G-site) [chemical binding]; other site 871585002209 dimer interface [polypeptide binding]; other site 871585002210 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 871585002211 putative dimer interface [polypeptide binding]; other site 871585002212 N-terminal domain interface [polypeptide binding]; other site 871585002213 putative substrate binding pocket (H-site) [chemical binding]; other site 871585002214 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585002215 Helix-turn-helix domains; Region: HTH; cl00088 871585002216 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 871585002217 putative dimerization interface [polypeptide binding]; other site 871585002218 LrgA family; Region: LrgA; cl00608 871585002219 LrgB-like family; Region: LrgB; cl00596 871585002220 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 871585002221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585002222 DNA-binding site [nucleotide binding]; DNA binding site 871585002223 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 871585002224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585002225 homodimer interface [polypeptide binding]; other site 871585002226 catalytic residue [active] 871585002227 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 871585002228 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 871585002229 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585002230 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871585002231 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 871585002232 putative substrate translocation pore; other site 871585002233 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 871585002234 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 871585002235 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 871585002236 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 871585002237 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 871585002238 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 871585002239 Acyl transferase domain; Region: Acyl_transf_1; cl08282 871585002240 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 871585002241 Malonate transporter MadL subunit; Region: MadL; cl04273 871585002242 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 871585002243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585002244 Helix-turn-helix domains; Region: HTH; cl00088 871585002245 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 871585002246 putative dimerization interface [polypeptide binding]; other site 871585002247 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 871585002248 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585002249 DNA-binding site [nucleotide binding]; DNA binding site 871585002250 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 871585002251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585002252 homodimer interface [polypeptide binding]; other site 871585002253 catalytic residue [active] 871585002254 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 871585002255 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 871585002256 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 871585002257 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585002258 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 871585002259 active site 871585002260 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 871585002261 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 871585002262 active site 871585002263 non-prolyl cis peptide bond; other site 871585002264 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 871585002265 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 871585002266 putative substrate translocation pore; other site 871585002267 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 871585002268 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 871585002269 substrate binding pocket [chemical binding]; other site 871585002270 membrane-bound complex binding site; other site 871585002271 hinge residues; other site 871585002272 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 871585002273 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 871585002274 Walker A/P-loop; other site 871585002275 ATP binding site [chemical binding]; other site 871585002276 Q-loop/lid; other site 871585002277 ABC transporter signature motif; other site 871585002278 Walker B; other site 871585002279 D-loop; other site 871585002280 H-loop/switch region; other site 871585002281 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871585002282 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 871585002283 dimer interface [polypeptide binding]; other site 871585002284 conserved gate region; other site 871585002285 putative PBP binding loops; other site 871585002286 ABC-ATPase subunit interface; other site 871585002287 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 871585002288 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 871585002289 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 871585002290 Sodium:solute symporter family; Region: SSF; cl00456 871585002291 Transcriptional regulators [Transcription]; Region: GntR; COG1802 871585002292 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585002293 DNA-binding site [nucleotide binding]; DNA binding site 871585002294 FCD domain; Region: FCD; cl11656 871585002295 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585002296 Helix-turn-helix domains; Region: HTH; cl00088 871585002297 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 871585002298 putative effector binding pocket; other site 871585002299 dimerization interface [polypeptide binding]; other site 871585002300 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 871585002301 Isochorismatase family; Region: Isochorismatase; pfam00857 871585002302 catalytic triad [active] 871585002303 dimer interface [polypeptide binding]; other site 871585002304 conserved cis-peptide bond; other site 871585002305 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 871585002306 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 871585002307 active site 871585002308 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 871585002309 ArsC family; Region: ArsC; pfam03960 871585002310 catalytic residues [active] 871585002311 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 871585002312 dimerization interface [polypeptide binding]; other site 871585002313 putative DNA binding site [nucleotide binding]; other site 871585002314 putative Zn2+ binding site [ion binding]; other site 871585002315 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 871585002316 Membrane transport protein; Region: Mem_trans; cl09117 871585002317 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 871585002318 Helix-turn-helix domains; Region: HTH; cl00088 871585002319 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 871585002320 putative dimerization interface [polypeptide binding]; other site 871585002321 putative substrate binding pocket [chemical binding]; other site 871585002322 Chromate transporter; Region: Chromate_transp; pfam02417 871585002323 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 871585002324 Chromate transporter; Region: Chromate_transp; pfam02417 871585002325 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 871585002326 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 871585002327 catalytic residue [active] 871585002328 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 871585002329 catalytic residues [active] 871585002330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585002331 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 871585002332 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585002333 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 871585002334 TPR motif; other site 871585002335 binding surface 871585002336 serine O-acetyltransferase; Region: cysE; TIGR01172 871585002337 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 871585002338 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 871585002339 trimer interface [polypeptide binding]; other site 871585002340 active site 871585002341 substrate binding site [chemical binding]; other site 871585002342 CoA binding site [chemical binding]; other site 871585002343 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 871585002344 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 871585002345 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 871585002346 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 871585002347 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 871585002348 generic binding surface II; other site 871585002349 generic binding surface I; other site 871585002350 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 871585002351 active site 871585002352 homodimer interface [polypeptide binding]; other site 871585002353 homotetramer interface [polypeptide binding]; other site 871585002354 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 871585002355 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 871585002356 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 871585002357 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 871585002358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585002359 homodimer interface [polypeptide binding]; other site 871585002360 catalytic residue [active] 871585002361 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 871585002362 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 871585002363 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 871585002364 catalytic residues [active] 871585002365 dimer interface [polypeptide binding]; other site 871585002366 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585002367 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585002368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585002369 LysE type translocator; Region: LysE; cl00565 871585002370 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 871585002371 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 871585002372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585002373 homodimer interface [polypeptide binding]; other site 871585002374 catalytic residue [active] 871585002375 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 871585002376 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 871585002377 metal binding triad; other site 871585002378 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 871585002379 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 871585002380 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 871585002381 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 871585002382 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 871585002383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585002384 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585002385 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 871585002386 trimer interface [polypeptide binding]; other site 871585002387 putative substrate binding pocket [chemical binding]; other site 871585002388 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 871585002389 putative L-valine exporter; Provisional; Region: PRK10408 871585002390 AzlC protein; Region: AzlC; cl00570 871585002391 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871585002392 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 871585002393 ligand binding site [chemical binding]; other site 871585002394 flexible hinge region; other site 871585002395 Helix-turn-helix domains; Region: HTH; cl00088 871585002396 Protein of unknown function (DUF962); Region: DUF962; cl01879 871585002397 GTP-binding protein YchF; Reviewed; Region: PRK09601 871585002398 YchF GTPase; Region: YchF; cd01900 871585002399 G1 box; other site 871585002400 GTP/Mg2+ binding site [chemical binding]; other site 871585002401 Switch I region; other site 871585002402 G2 box; other site 871585002403 Switch II region; other site 871585002404 G3 box; other site 871585002405 G4 box; other site 871585002406 G5 box; other site 871585002407 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 871585002408 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 871585002409 dimer interface [polypeptide binding]; other site 871585002410 conserved gate region; other site 871585002411 ABC-ATPase subunit interface; other site 871585002412 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 871585002413 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 871585002414 Walker A/P-loop; other site 871585002415 ATP binding site [chemical binding]; other site 871585002416 Q-loop/lid; other site 871585002417 ABC transporter signature motif; other site 871585002418 Walker B; other site 871585002419 D-loop; other site 871585002420 H-loop/switch region; other site 871585002421 NIL domain; Region: NIL; cl09633 871585002422 NMT1-like family; Region: NMT1_2; cl15260 871585002423 NMT1-like family; Region: NMT1_2; cl15260 871585002424 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 871585002425 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 871585002426 active site 871585002427 non-prolyl cis peptide bond; other site 871585002428 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 871585002429 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 871585002430 Flavin binding site [chemical binding]; other site 871585002431 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 871585002432 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585002433 active site 871585002434 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 871585002435 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 871585002436 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 871585002437 N-terminal domain interface [polypeptide binding]; other site 871585002438 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 871585002439 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 871585002440 substrate binding pocket [chemical binding]; other site 871585002441 membrane-bound complex binding site; other site 871585002442 hinge residues; other site 871585002443 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 871585002444 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 871585002445 dimer interface [polypeptide binding]; other site 871585002446 conserved gate region; other site 871585002447 putative PBP binding loops; other site 871585002448 ABC-ATPase subunit interface; other site 871585002449 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 871585002450 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 871585002451 dimer interface [polypeptide binding]; other site 871585002452 conserved gate region; other site 871585002453 putative PBP binding loops; other site 871585002454 ABC-ATPase subunit interface; other site 871585002455 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 871585002456 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 871585002457 Walker A/P-loop; other site 871585002458 ATP binding site [chemical binding]; other site 871585002459 Q-loop/lid; other site 871585002460 ABC transporter signature motif; other site 871585002461 Walker B; other site 871585002462 D-loop; other site 871585002463 H-loop/switch region; other site 871585002464 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871585002465 Helix-turn-helix domains; Region: HTH; cl00088 871585002466 Transcriptional regulator; Region: Transcrip_reg; cl00361 871585002467 potential frameshift: common BLAST hit: gi|299770473|ref|YP_003732499.1| Acyltransferase family protein 871585002468 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585002469 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585002470 putative acyl-acceptor binding pocket; other site 871585002471 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585002472 Helix-turn-helix domains; Region: HTH; cl00088 871585002473 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585002474 Helix-turn-helix domains; Region: HTH; cl00088 871585002475 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 871585002476 dimerization interface [polypeptide binding]; other site 871585002477 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 871585002478 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 871585002479 Sodium:solute symporter family; Region: SSF; cl00456 871585002480 EamA-like transporter family; Region: EamA; cl01037 871585002481 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585002482 Helix-turn-helix domains; Region: HTH; cl00088 871585002483 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 871585002484 dimerization interface [polypeptide binding]; other site 871585002485 putative major fimbrial protein SthE; Provisional; Region: PRK15292 871585002486 Fimbrial protein; Region: Fimbrial; cl01416 871585002487 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 871585002488 PapC N-terminal domain; Region: PapC_N; pfam13954 871585002489 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 871585002490 PapC C-terminal domain; Region: PapC_C; pfam13953 871585002491 putative chaperone protein EcpD; Provisional; Region: PRK09926 871585002492 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 871585002493 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 871585002494 Fimbrial protein; Region: Fimbrial; cl01416 871585002495 biotin synthase; Provisional; Region: PRK15108 871585002496 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 871585002497 FeS/SAM binding site; other site 871585002498 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 871585002499 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 871585002500 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 871585002501 potential frameshift: common BLAST hit: gi|299770454|ref|YP_003732480.1| Carbohydrate kinase family protein 871585002502 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 871585002503 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 871585002504 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 871585002505 active site 871585002506 putative DNA-binding cleft [nucleotide binding]; other site 871585002507 dimer interface [polypeptide binding]; other site 871585002508 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 871585002509 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 871585002510 non-specific DNA binding site [nucleotide binding]; other site 871585002511 salt bridge; other site 871585002512 sequence-specific DNA binding site [nucleotide binding]; other site 871585002513 Cupin domain; Region: Cupin_2; cl09118 871585002514 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 871585002515 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585002516 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585002517 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 871585002518 potential frameshift: common BLAST hit: gi|299770446|ref|YP_003732472.1| S-adenosylmethionine synthetase 871585002519 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 871585002520 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 871585002521 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 871585002522 transketolase; Reviewed; Region: PRK12753 871585002523 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 871585002524 TPP-binding site [chemical binding]; other site 871585002525 dimer interface [polypeptide binding]; other site 871585002526 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 871585002527 PYR/PP interface [polypeptide binding]; other site 871585002528 dimer interface [polypeptide binding]; other site 871585002529 TPP binding site [chemical binding]; other site 871585002530 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 871585002531 OsmC-like protein; Region: OsmC; cl00767 871585002532 YceI-like domain; Region: YceI; cl01001 871585002533 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 871585002534 Predicted periplasmic protein [Function unknown]; Region: COG3698 871585002535 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 871585002536 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 871585002537 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 871585002538 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 871585002539 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 871585002540 Proline dehydrogenase; Region: Pro_dh; cl03282 871585002541 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 871585002542 Glutamate binding site [chemical binding]; other site 871585002543 NAD binding site [chemical binding]; other site 871585002544 catalytic residues [active] 871585002545 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 871585002546 Helix-turn-helix domains; Region: HTH; cl00088 871585002547 Sodium:solute symporter family; Region: SSF; cl00456 871585002548 NAD-dependent deacetylase; Provisional; Region: PRK00481 871585002549 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 871585002550 NAD+ binding site [chemical binding]; other site 871585002551 substrate binding site [chemical binding]; other site 871585002552 Zn binding site [ion binding]; other site 871585002553 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 871585002554 lipoyl attachment site [posttranslational modification]; other site 871585002555 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585002556 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585002557 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585002558 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 871585002559 putative active site [active] 871585002560 putative catalytic site [active] 871585002561 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 871585002562 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 871585002563 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 871585002564 Walker A/P-loop; other site 871585002565 ATP binding site [chemical binding]; other site 871585002566 Q-loop/lid; other site 871585002567 ABC transporter signature motif; other site 871585002568 Walker B; other site 871585002569 D-loop; other site 871585002570 H-loop/switch region; other site 871585002571 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 871585002572 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 871585002573 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 871585002574 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 871585002575 dimerization interface [polypeptide binding]; other site 871585002576 putative DNA binding site [nucleotide binding]; other site 871585002577 putative Zn2+ binding site [ion binding]; other site 871585002578 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585002579 Helix-turn-helix domains; Region: HTH; cl00088 871585002580 Cupin superfamily protein; Region: Cupin_4; pfam08007 871585002581 JmjC domain, hydroxylase; Region: JmjC; cl15814 871585002582 Cupin domain; Region: Cupin_2; cl09118 871585002583 Maf-like protein; Region: Maf; pfam02545 871585002584 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 871585002585 active site 871585002586 dimer interface [polypeptide binding]; other site 871585002587 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 871585002588 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 871585002589 Phosphoglycerate kinase; Region: PGK; pfam00162 871585002590 substrate binding site [chemical binding]; other site 871585002591 hinge regions; other site 871585002592 ADP binding site [chemical binding]; other site 871585002593 catalytic site [active] 871585002594 hypothetical protein; Provisional; Region: PRK08185 871585002595 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 871585002596 intersubunit interface [polypeptide binding]; other site 871585002597 active site 871585002598 zinc binding site [ion binding]; other site 871585002599 Na+ binding site [ion binding]; other site 871585002600 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 871585002601 SurA N-terminal domain; Region: SurA_N_3; cl07813 871585002602 PPIC-type PPIASE domain; Region: Rotamase; cl08278 871585002603 PPIC-type PPIASE domain; Region: Rotamase; cl08278 871585002604 OstA-like protein; Region: OstA; cl00844 871585002605 Organic solvent tolerance protein; Region: OstA_C; pfam04453 871585002606 Phosphotransferase enzyme family; Region: APH; pfam01636 871585002607 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 871585002608 substrate binding site [chemical binding]; other site 871585002609 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 871585002610 Substrate binding site; other site 871585002611 metal-binding site 871585002612 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 871585002613 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 871585002614 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 871585002615 P-loop; other site 871585002616 Magnesium ion binding site [ion binding]; other site 871585002617 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 871585002618 Magnesium ion binding site [ion binding]; other site 871585002619 ParB-like partition proteins; Region: parB_part; TIGR00180 871585002620 ParB-like nuclease domain; Region: ParBc; cl02129 871585002621 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 871585002622 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 871585002623 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 871585002624 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 871585002625 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 871585002626 Walker A/P-loop; other site 871585002627 ATP binding site [chemical binding]; other site 871585002628 Q-loop/lid; other site 871585002629 ABC transporter signature motif; other site 871585002630 Walker B; other site 871585002631 D-loop; other site 871585002632 H-loop/switch region; other site 871585002633 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 871585002634 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 871585002635 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 871585002636 Ligand binding site; other site 871585002637 oligomer interface; other site 871585002638 DNA polymerase III subunit delta'; Validated; Region: PRK05707 871585002639 PilZ domain; Region: PilZ; cl01260 871585002640 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 871585002641 active site 871585002642 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585002643 Helix-turn-helix domains; Region: HTH; cl00088 871585002644 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 871585002645 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 871585002646 general secretion pathway protein J; Region: gspJ; TIGR01711 871585002647 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 871585002648 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 871585002649 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 871585002650 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 871585002651 ligand binding site [chemical binding]; other site 871585002652 active site 871585002653 UGI interface [polypeptide binding]; other site 871585002654 catalytic site [active] 871585002655 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 871585002656 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 871585002657 substrate binding site [chemical binding]; other site 871585002658 oxyanion hole (OAH) forming residues; other site 871585002659 trimer interface [polypeptide binding]; other site 871585002660 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 871585002661 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 871585002662 nucleoside/Zn binding site; other site 871585002663 dimer interface [polypeptide binding]; other site 871585002664 catalytic motif [active] 871585002665 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 871585002666 putative hydrophobic ligand binding site [chemical binding]; other site 871585002667 protein interface [polypeptide binding]; other site 871585002668 gate; other site 871585002669 cytidylate kinase; Provisional; Region: cmk; PRK00023 871585002670 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 871585002671 CMP-binding site; other site 871585002672 The sites determining sugar specificity; other site 871585002673 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 871585002674 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 871585002675 RNA binding site [nucleotide binding]; other site 871585002676 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 871585002677 RNA binding site [nucleotide binding]; other site 871585002678 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 871585002679 RNA binding site [nucleotide binding]; other site 871585002680 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 871585002681 RNA binding site [nucleotide binding]; other site 871585002682 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 871585002683 RNA binding site [nucleotide binding]; other site 871585002684 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 871585002685 RNA binding site [nucleotide binding]; other site 871585002686 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 871585002687 IHF dimer interface [polypeptide binding]; other site 871585002688 IHF - DNA interface [nucleotide binding]; other site 871585002689 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 871585002690 active site 871585002691 dimer interface [polypeptide binding]; other site 871585002692 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 871585002693 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 871585002694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585002695 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585002696 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585002697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585002698 Predicted ATPase [General function prediction only]; Region: COG1485 871585002699 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 871585002700 active site 871585002701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585002702 Coenzyme A binding pocket [chemical binding]; other site 871585002703 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 871585002704 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 871585002705 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 871585002706 Gram-negative bacterial tonB protein; Region: TonB; cl10048 871585002707 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 871585002708 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 871585002709 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 871585002710 ligand-binding site [chemical binding]; other site 871585002711 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 871585002712 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 871585002713 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 871585002714 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 871585002715 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 871585002716 Peptidase M3 Thimet oligopeptidase (TOP) also includes neurolysin; Region: M3A_TOP; cd06455 871585002717 active site 871585002718 Zn binding site [ion binding]; other site 871585002719 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 871585002720 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 871585002721 dimer interface [polypeptide binding]; other site 871585002722 conserved gate region; other site 871585002723 putative PBP binding loops; other site 871585002724 ABC-ATPase subunit interface; other site 871585002725 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 871585002726 dimer interface [polypeptide binding]; other site 871585002727 conserved gate region; other site 871585002728 putative PBP binding loops; other site 871585002729 ABC-ATPase subunit interface; other site 871585002730 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 871585002731 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 871585002732 Walker A/P-loop; other site 871585002733 ATP binding site [chemical binding]; other site 871585002734 Q-loop/lid; other site 871585002735 ABC transporter signature motif; other site 871585002736 Walker B; other site 871585002737 D-loop; other site 871585002738 H-loop/switch region; other site 871585002739 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 871585002740 Walker A/P-loop; other site 871585002741 ATP binding site [chemical binding]; other site 871585002742 Q-loop/lid; other site 871585002743 ABC transporter signature motif; other site 871585002744 Walker B; other site 871585002745 D-loop; other site 871585002746 H-loop/switch region; other site 871585002747 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 871585002748 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 871585002749 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 871585002750 active site 871585002751 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 871585002752 catalytic core [active] 871585002753 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 871585002754 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 871585002755 NAD binding site [chemical binding]; other site 871585002756 active site 871585002757 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 871585002758 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 871585002759 putative C-terminal domain interface [polypeptide binding]; other site 871585002760 putative GSH binding site (G-site) [chemical binding]; other site 871585002761 putative dimer interface [polypeptide binding]; other site 871585002762 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 871585002763 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 871585002764 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 871585002765 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 871585002766 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 871585002767 ATP binding site [chemical binding]; other site 871585002768 putative Mg++ binding site [ion binding]; other site 871585002769 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 871585002770 nucleotide binding region [chemical binding]; other site 871585002771 ATP-binding site [chemical binding]; other site 871585002772 TRCF domain; Region: TRCF; cl04088 871585002773 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 871585002774 cyclase homology domain; Region: CHD; cd07302 871585002775 nucleotidyl binding site; other site 871585002776 metal binding site [ion binding]; metal-binding site 871585002777 dimer interface [polypeptide binding]; other site 871585002778 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 871585002779 catalytic loop [active] 871585002780 iron binding site [ion binding]; other site 871585002781 chaperone protein HscA; Provisional; Region: hscA; PRK05183 871585002782 co-chaperone HscB; Provisional; Region: hscB; PRK05014 871585002783 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 871585002784 HSP70 interaction site [polypeptide binding]; other site 871585002785 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 871585002786 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 871585002787 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 871585002788 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 871585002789 trimerization site [polypeptide binding]; other site 871585002790 active site 871585002791 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 871585002792 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 871585002793 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871585002794 catalytic residue [active] 871585002795 Helix-turn-helix domains; Region: HTH; cl00088 871585002796 Rrf2 family protein; Region: rrf2_super; TIGR00738 871585002797 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 871585002798 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 871585002799 IHF dimer interface [polypeptide binding]; other site 871585002800 IHF - DNA interface [nucleotide binding]; other site 871585002801 periplasmic folding chaperone; Provisional; Region: PRK10788 871585002802 SurA N-terminal domain; Region: SurA_N_3; cl07813 871585002803 PPIC-type PPIASE domain; Region: Rotamase; cl08278 871585002804 Cupin domain; Region: Cupin_2; cl09118 871585002805 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585002806 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585002807 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 871585002808 Di-iron ligands [ion binding]; other site 871585002809 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585002810 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585002811 active site 871585002812 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585002813 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585002814 active site 871585002815 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585002816 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 871585002817 putative deacylase active site [active] 871585002818 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 871585002819 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 871585002820 N-terminal plug; other site 871585002821 ligand-binding site [chemical binding]; other site 871585002822 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 871585002823 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 871585002824 motif II; other site 871585002825 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 871585002826 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 871585002827 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 871585002828 homotrimer interface [polypeptide binding]; other site 871585002829 Walker A motif; other site 871585002830 GTP binding site [chemical binding]; other site 871585002831 Walker B motif; other site 871585002832 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 871585002833 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 871585002834 putative dimer interface [polypeptide binding]; other site 871585002835 active site pocket [active] 871585002836 putative cataytic base [active] 871585002837 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 871585002838 catalytic core [active] 871585002839 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; cl11399 871585002840 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 871585002841 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 871585002842 NeuB family; Region: NeuB; cl00496 871585002843 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 871585002844 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 871585002845 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 871585002846 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 871585002847 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 871585002848 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 871585002849 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 871585002850 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 871585002851 N-terminal plug; other site 871585002852 ligand-binding site [chemical binding]; other site 871585002853 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 871585002854 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 871585002855 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 871585002856 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 871585002857 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 871585002858 eyelet of channel; other site 871585002859 trimer interface [polypeptide binding]; other site 871585002860 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 871585002861 HIT family signature motif; other site 871585002862 catalytic residue [active] 871585002863 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 871585002864 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 871585002865 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 871585002866 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 871585002867 homodimer interface [polypeptide binding]; other site 871585002868 substrate-cofactor binding pocket; other site 871585002869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585002870 catalytic residue [active] 871585002871 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 871585002872 recombination protein RecR; Reviewed; Region: recR; PRK00076 871585002873 RecR protein; Region: RecR; pfam02132 871585002874 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 871585002875 putative active site [active] 871585002876 putative metal-binding site [ion binding]; other site 871585002877 tetramer interface [polypeptide binding]; other site 871585002878 ribonuclease D; Region: rnd; TIGR01388 871585002879 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 871585002880 catalytic site [active] 871585002881 putative active site [active] 871585002882 putative substrate binding site [chemical binding]; other site 871585002883 HRDC domain; Region: HRDC; cl02578 871585002884 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585002885 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585002886 Helix-turn-helix domains; Region: HTH; cl00088 871585002887 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 871585002888 dimerization interface [polypeptide binding]; other site 871585002889 YcgL domain; Region: YcgL; cl01189 871585002890 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 871585002891 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 871585002892 Walker A motif; other site 871585002893 ATP binding site [chemical binding]; other site 871585002894 Walker B motif; other site 871585002895 arginine finger; other site 871585002896 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 871585002897 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 871585002898 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 871585002899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585002900 catalytic residue [active] 871585002901 HemK family putative methylases; Region: hemK_fam; TIGR00536 871585002902 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 871585002903 S-adenosylmethionine binding site [chemical binding]; other site 871585002904 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 871585002905 Tetramer interface [polypeptide binding]; other site 871585002906 active site 871585002907 FMN-binding site [chemical binding]; other site 871585002908 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871585002909 metal binding site [ion binding]; metal-binding site 871585002910 active site 871585002911 I-site; other site 871585002912 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 871585002913 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 871585002914 lipoyl synthase; Provisional; Region: PRK12928 871585002915 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 871585002916 FeS/SAM binding site; other site 871585002917 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 871585002918 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 871585002919 tetramer interface [polypeptide binding]; other site 871585002920 TPP-binding site [chemical binding]; other site 871585002921 heterodimer interface [polypeptide binding]; other site 871585002922 phosphorylation loop region [posttranslational modification] 871585002923 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 871585002924 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 871585002925 alpha subunit interface [polypeptide binding]; other site 871585002926 TPP binding site [chemical binding]; other site 871585002927 heterodimer interface [polypeptide binding]; other site 871585002928 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 871585002929 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 871585002930 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 871585002931 E3 interaction surface; other site 871585002932 lipoyl attachment site [posttranslational modification]; other site 871585002933 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 871585002934 e3 binding domain; Region: E3_binding; pfam02817 871585002935 e3 binding domain; Region: E3_binding; pfam02817 871585002936 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 871585002937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585002938 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 871585002939 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585002940 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 871585002941 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 871585002942 acetoin reductases; Region: 23BDH; TIGR02415 871585002943 NAD binding site [chemical binding]; other site 871585002944 homotetramer interface [polypeptide binding]; other site 871585002945 homodimer interface [polypeptide binding]; other site 871585002946 active site 871585002947 substrate binding site [chemical binding]; other site 871585002948 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 871585002949 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 871585002950 putative NAD(P) binding site [chemical binding]; other site 871585002951 catalytic Zn binding site [ion binding]; other site 871585002952 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 871585002953 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 871585002954 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 871585002955 Walker A motif; other site 871585002956 ATP binding site [chemical binding]; other site 871585002957 Walker B motif; other site 871585002958 arginine finger; other site 871585002959 Helix-turn-helix domains; Region: HTH; cl00088 871585002960 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585002961 potential frameshift: common BLAST hit: gi|184158064|ref|YP_001846403.1| NAD(FAD)-dependent dehydrogenase 871585002962 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 871585002963 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 871585002964 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 871585002965 homoserine dehydrogenase; Validated; Region: PRK06813 871585002966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585002967 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 871585002968 EamA-like transporter family; Region: EamA; cl01037 871585002969 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585002970 EamA-like transporter family; Region: EamA; cl01037 871585002971 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 871585002972 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585002973 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585002974 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585002975 Helix-turn-helix domains; Region: HTH; cl00088 871585002976 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585002977 Chromate transporter; Region: Chromate_transp; pfam02417 871585002978 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 871585002979 Chromate transporter; Region: Chromate_transp; pfam02417 871585002980 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585002981 DNA-binding site [nucleotide binding]; DNA binding site 871585002982 UTRA domain; Region: UTRA; cl01230 871585002983 putative oxidoreductase; Provisional; Region: PRK08275 871585002984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585002985 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 871585002986 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 871585002987 NMT1-like family; Region: NMT1_2; cl15260 871585002988 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 871585002989 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871585002990 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 871585002991 dimer interface [polypeptide binding]; other site 871585002992 conserved gate region; other site 871585002993 putative PBP binding loops; other site 871585002994 ABC-ATPase subunit interface; other site 871585002995 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871585002996 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 871585002997 Walker A/P-loop; other site 871585002998 ATP binding site [chemical binding]; other site 871585002999 Q-loop/lid; other site 871585003000 ABC transporter signature motif; other site 871585003001 Walker B; other site 871585003002 D-loop; other site 871585003003 H-loop/switch region; other site 871585003004 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 871585003005 Protein of unknown function (DUF971); Region: DUF971; cl01414 871585003006 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 871585003007 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 871585003008 putative substrate translocation pore; other site 871585003009 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 871585003010 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 871585003011 N-terminal plug; other site 871585003012 ligand-binding site [chemical binding]; other site 871585003013 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 871585003014 Aspartase; Region: Aspartase; cd01357 871585003015 active sites [active] 871585003016 tetramer interface [polypeptide binding]; other site 871585003017 SurA N-terminal domain; Region: SurA_N_3; cl07813 871585003018 cell density-dependent motility repressor; Provisional; Region: PRK10082 871585003019 Helix-turn-helix domains; Region: HTH; cl00088 871585003020 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 871585003021 dimerization interface [polypeptide binding]; other site 871585003022 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585003023 Helix-turn-helix domains; Region: HTH; cl00088 871585003024 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 871585003025 substrate binding pocket [chemical binding]; other site 871585003026 dimerization interface [polypeptide binding]; other site 871585003027 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 871585003028 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 871585003029 dimer interface [polypeptide binding]; other site 871585003030 active site 871585003031 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 871585003032 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 871585003033 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 871585003034 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585003035 Helix-turn-helix domains; Region: HTH; cl00088 871585003036 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 871585003037 putative dimerization interface [polypeptide binding]; other site 871585003038 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 871585003039 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 871585003040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003041 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 871585003042 NAD(P) binding site [chemical binding]; other site 871585003043 active site 871585003044 Helix-turn-helix domain; Region: HTH_18; pfam12833 871585003045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585003046 benzoate transport; Region: 2A0115; TIGR00895 871585003047 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 871585003048 putative substrate translocation pore; other site 871585003049 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 871585003050 outer membrane porin, OprD family; Region: OprD; pfam03573 871585003051 Dienelactone hydrolase family; Region: DLH; pfam01738 871585003052 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 871585003053 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 871585003054 classical (c) SDRs; Region: SDR_c; cd05233 871585003055 NAD(P) binding site [chemical binding]; other site 871585003056 active site 871585003057 Flavin Reductases; Region: FlaRed; cl00801 871585003058 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 871585003059 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585003060 Helix-turn-helix domain; Region: HTH_18; pfam12833 871585003061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585003062 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 871585003063 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 871585003064 catalytic loop [active] 871585003065 iron binding site [ion binding]; other site 871585003066 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 871585003067 FAD binding pocket [chemical binding]; other site 871585003068 FAD binding motif [chemical binding]; other site 871585003069 phosphate binding motif [ion binding]; other site 871585003070 beta-alpha-beta structure motif; other site 871585003071 NAD binding pocket [chemical binding]; other site 871585003072 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 871585003073 inter-subunit interface; other site 871585003074 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 871585003075 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 871585003076 [2Fe-2S] cluster binding site [ion binding]; other site 871585003077 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 871585003078 putative alpha subunit interface [polypeptide binding]; other site 871585003079 putative active site [active] 871585003080 putative substrate binding site [chemical binding]; other site 871585003081 Fe binding site [ion binding]; other site 871585003082 Helix-turn-helix domains; Region: HTH; cl00088 871585003083 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 871585003084 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 871585003085 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 871585003086 dimer interface [polypeptide binding]; other site 871585003087 conserved gate region; other site 871585003088 putative PBP binding loops; other site 871585003089 ABC-ATPase subunit interface; other site 871585003090 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585003091 Walker A/P-loop; other site 871585003092 ATP binding site [chemical binding]; other site 871585003093 Q-loop/lid; other site 871585003094 ABC transporter signature motif; other site 871585003095 Walker B; other site 871585003096 D-loop; other site 871585003097 H-loop/switch region; other site 871585003098 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 871585003099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003100 NAD(P) binding site [chemical binding]; other site 871585003101 active site 871585003102 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 871585003103 hydrophobic substrate binding pocket; other site 871585003104 Isochorismatase family; Region: Isochorismatase; pfam00857 871585003105 active site 871585003106 conserved cis-peptide bond; other site 871585003107 Helix-turn-helix domains; Region: HTH; cl00088 871585003108 metal binding site 2 [ion binding]; metal-binding site 871585003109 putative DNA binding helix; other site 871585003110 metal binding site 1 [ion binding]; metal-binding site 871585003111 dimer interface [polypeptide binding]; other site 871585003112 structural Zn2+ binding site [ion binding]; other site 871585003113 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 871585003114 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 871585003115 putative active site [active] 871585003116 putative metal binding site [ion binding]; other site 871585003117 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 871585003118 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585003119 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 871585003120 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 871585003121 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 871585003122 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 871585003123 FeS/SAM binding site; other site 871585003124 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 871585003125 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 871585003126 active site 871585003127 dimer interface [polypeptide binding]; other site 871585003128 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 871585003129 Protein export membrane protein; Region: SecD_SecF; cl14618 871585003130 Protein export membrane protein; Region: SecD_SecF; cl14618 871585003131 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 871585003132 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 871585003133 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 871585003134 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871585003135 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 871585003136 active site 871585003137 phosphorylation site [posttranslational modification] 871585003138 intermolecular recognition site; other site 871585003139 dimerization interface [polypeptide binding]; other site 871585003140 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 871585003141 DNA binding site [nucleotide binding] 871585003142 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871585003143 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 871585003144 dimerization interface [polypeptide binding]; other site 871585003145 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 871585003146 dimer interface [polypeptide binding]; other site 871585003147 phosphorylation site [posttranslational modification] 871585003148 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 871585003149 ATP binding site [chemical binding]; other site 871585003150 Mg2+ binding site [ion binding]; other site 871585003151 G-X-G motif; other site 871585003152 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 871585003153 putative active site [active] 871585003154 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 871585003155 PLD-like domain; Region: PLDc_2; pfam13091 871585003156 putative active site [active] 871585003157 catalytic site [active] 871585003158 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 871585003159 putative active site [active] 871585003160 catalytic site [active] 871585003161 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 871585003162 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 871585003163 putative heme binding pocket [chemical binding]; other site 871585003164 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 871585003165 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 871585003166 substrate binding site [chemical binding]; other site 871585003167 catalytic Zn binding site [ion binding]; other site 871585003168 NAD binding site [chemical binding]; other site 871585003169 structural Zn binding site [ion binding]; other site 871585003170 dimer interface [polypeptide binding]; other site 871585003171 putative major fimbrial protein SthE; Provisional; Region: PRK15292 871585003172 Fimbrial protein; Region: Fimbrial; cl01416 871585003173 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 871585003174 PapC N-terminal domain; Region: PapC_N; pfam13954 871585003175 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 871585003176 PapC C-terminal domain; Region: PapC_C; pfam13953 871585003177 putative chaperone protein EcpD; Provisional; Region: PRK09926 871585003178 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 871585003179 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 871585003180 Fimbrial protein; Region: Fimbrial; cl01416 871585003181 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 871585003182 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 871585003183 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 871585003184 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 871585003185 active site 871585003186 dimer interface [polypeptide binding]; other site 871585003187 non-prolyl cis peptide bond; other site 871585003188 insertion regions; other site 871585003189 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 871585003190 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 871585003191 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 871585003192 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 871585003193 dimer interface [polypeptide binding]; other site 871585003194 conserved gate region; other site 871585003195 putative PBP binding loops; other site 871585003196 ABC-ATPase subunit interface; other site 871585003197 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 871585003198 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 871585003199 dimer interface [polypeptide binding]; other site 871585003200 conserved gate region; other site 871585003201 putative PBP binding loops; other site 871585003202 ABC-ATPase subunit interface; other site 871585003203 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 871585003204 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 871585003205 Walker A/P-loop; other site 871585003206 ATP binding site [chemical binding]; other site 871585003207 Q-loop/lid; other site 871585003208 ABC transporter signature motif; other site 871585003209 Walker B; other site 871585003210 D-loop; other site 871585003211 H-loop/switch region; other site 871585003212 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 871585003213 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 871585003214 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 871585003215 Walker A/P-loop; other site 871585003216 ATP binding site [chemical binding]; other site 871585003217 Q-loop/lid; other site 871585003218 ABC transporter signature motif; other site 871585003219 Walker B; other site 871585003220 D-loop; other site 871585003221 H-loop/switch region; other site 871585003222 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 871585003223 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 871585003224 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585003225 active site 871585003226 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 871585003227 NMT1-like family; Region: NMT1_2; cl15260 871585003228 NMT1-like family; Region: NMT1_2; cl15260 871585003229 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 871585003230 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 871585003231 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585003232 Walker A/P-loop; other site 871585003233 ATP binding site [chemical binding]; other site 871585003234 Q-loop/lid; other site 871585003235 ABC transporter signature motif; other site 871585003236 Walker B; other site 871585003237 D-loop; other site 871585003238 H-loop/switch region; other site 871585003239 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 871585003240 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 871585003241 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 871585003242 Walker A/P-loop; other site 871585003243 ATP binding site [chemical binding]; other site 871585003244 Q-loop/lid; other site 871585003245 ABC transporter signature motif; other site 871585003246 Walker B; other site 871585003247 D-loop; other site 871585003248 H-loop/switch region; other site 871585003249 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 871585003250 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 871585003251 N-terminal plug; other site 871585003252 ligand-binding site [chemical binding]; other site 871585003253 Esterase/lipase [General function prediction only]; Region: COG1647 871585003254 Secretory lipase; Region: LIP; pfam03583 871585003255 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 871585003256 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 871585003257 dimer interface [polypeptide binding]; other site 871585003258 active site 871585003259 non-prolyl cis peptide bond; other site 871585003260 insertion regions; other site 871585003261 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 871585003262 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 871585003263 Walker A motif; other site 871585003264 ATP binding site [chemical binding]; other site 871585003265 Walker B motif; other site 871585003266 arginine finger; other site 871585003267 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 871585003268 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 871585003269 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 871585003270 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871585003271 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 871585003272 Walker A/P-loop; other site 871585003273 ATP binding site [chemical binding]; other site 871585003274 Q-loop/lid; other site 871585003275 ABC transporter signature motif; other site 871585003276 Walker B; other site 871585003277 D-loop; other site 871585003278 H-loop/switch region; other site 871585003279 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871585003280 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 871585003281 dimer interface [polypeptide binding]; other site 871585003282 conserved gate region; other site 871585003283 ABC-ATPase subunit interface; other site 871585003284 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871585003285 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 871585003286 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 871585003287 NMT1-like family; Region: NMT1_2; cl15260 871585003288 NMT1-like family; Region: NMT1_2; cl15260 871585003289 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 871585003290 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 871585003291 active site 871585003292 dimer interface [polypeptide binding]; other site 871585003293 non-prolyl cis peptide bond; other site 871585003294 insertion regions; other site 871585003295 Gram-negative bacterial tonB protein; Region: TonB; cl10048 871585003296 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 871585003297 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 871585003298 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 871585003299 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 871585003300 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 871585003301 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 871585003302 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 871585003303 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 871585003304 N-terminal plug; other site 871585003305 ligand-binding site [chemical binding]; other site 871585003306 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 871585003307 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 871585003308 active site 871585003309 dimer interface [polypeptide binding]; other site 871585003310 non-prolyl cis peptide bond; other site 871585003311 insertion regions; other site 871585003312 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 871585003313 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 871585003314 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871585003315 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 871585003316 Walker A/P-loop; other site 871585003317 ATP binding site [chemical binding]; other site 871585003318 Q-loop/lid; other site 871585003319 ABC transporter signature motif; other site 871585003320 Walker B; other site 871585003321 D-loop; other site 871585003322 H-loop/switch region; other site 871585003323 Gram-negative bacterial tonB protein; Region: TonB; cl10048 871585003324 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 871585003325 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 871585003326 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871585003327 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 871585003328 ligand binding site [chemical binding]; other site 871585003329 flexible hinge region; other site 871585003330 Helix-turn-helix domains; Region: HTH; cl00088 871585003331 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 871585003332 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 871585003333 active site 871585003334 iron coordination sites [ion binding]; other site 871585003335 substrate binding pocket [chemical binding]; other site 871585003336 NMT1-like family; Region: NMT1_2; cl15260 871585003337 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 871585003338 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 871585003339 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 871585003340 N-terminal plug; other site 871585003341 ligand-binding site [chemical binding]; other site 871585003342 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 871585003343 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 871585003344 active site 871585003345 non-prolyl cis peptide bond; other site 871585003346 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 871585003347 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 871585003348 active site 871585003349 catalytic tetrad [active] 871585003350 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 871585003351 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 871585003352 N-terminal plug; other site 871585003353 ligand-binding site [chemical binding]; other site 871585003354 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 871585003355 Sulfatase; Region: Sulfatase; cl10460 871585003356 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871585003357 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 871585003358 ligand binding site [chemical binding]; other site 871585003359 flexible hinge region; other site 871585003360 Helix-turn-helix domains; Region: HTH; cl00088 871585003361 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 871585003362 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 871585003363 active site 871585003364 iron coordination sites [ion binding]; other site 871585003365 substrate binding pocket [chemical binding]; other site 871585003366 NMT1-like family; Region: NMT1_2; cl15260 871585003367 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 871585003368 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 871585003369 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 871585003370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585003371 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 871585003372 nucleotide binding region [chemical binding]; other site 871585003373 ATP-binding site [chemical binding]; other site 871585003374 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 871585003375 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 871585003376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003377 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 871585003378 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585003379 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585003380 Walker A motif; other site 871585003381 ATP binding site [chemical binding]; other site 871585003382 Walker B motif; other site 871585003383 haemagglutination activity domain; Region: Haemagg_act; cl05436 871585003384 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 871585003385 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 871585003386 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 871585003387 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 871585003388 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 871585003389 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 871585003390 Surface antigen; Region: Bac_surface_Ag; cl03097 871585003391 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585003392 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 871585003393 Helix-turn-helix domains; Region: HTH; cl00088 871585003394 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585003395 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 871585003396 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585003397 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 871585003398 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 871585003399 classical (c) SDRs; Region: SDR_c; cd05233 871585003400 NAD(P) binding site [chemical binding]; other site 871585003401 active site 871585003402 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 871585003403 classical (c) SDRs; Region: SDR_c; cd05233 871585003404 NAD(P) binding site [chemical binding]; other site 871585003405 active site 871585003406 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 871585003407 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 871585003408 putative substrate translocation pore; other site 871585003409 potential frameshift: common BLAST hit: gi|299770117|ref|YP_003732143.1| putative acyl-CoA transferase/carnitine dehydratase 871585003410 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 871585003411 CoA-transferase family III; Region: CoA_transf_3; pfam02515 871585003412 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 871585003413 active site 871585003414 catalytic residues [active] 871585003415 metal binding site [ion binding]; metal-binding site 871585003416 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 871585003417 Strictosidine synthase; Region: Str_synth; pfam03088 871585003418 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 871585003419 Citrate transporter; Region: CitMHS; pfam03600 871585003420 Transcriptional regulator [Transcription]; Region: IclR; COG1414 871585003421 Helix-turn-helix domains; Region: HTH; cl00088 871585003422 Bacterial transcriptional regulator; Region: IclR; pfam01614 871585003423 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 871585003424 catalytic residues [active] 871585003425 catalytic nucleophile [active] 871585003426 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 871585003427 DNA-binding interface [nucleotide binding]; DNA binding site 871585003428 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871585003429 Helix-turn-helix domains; Region: HTH; cl00088 871585003430 LysE type translocator; Region: LysE; cl00565 871585003431 Sel1 repeat; Region: Sel1; cl02723 871585003432 Sel1 repeat; Region: Sel1; cl02723 871585003433 Sel1 repeat; Region: Sel1; cl02723 871585003434 Sel1 repeat; Region: Sel1; cl02723 871585003435 Sel1 repeat; Region: Sel1; cl02723 871585003436 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585003437 Coenzyme A binding pocket [chemical binding]; other site 871585003438 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585003439 Helix-turn-helix domains; Region: HTH; cl00088 871585003440 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 871585003441 Survival protein SurE; Region: SurE; cl00448 871585003442 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 871585003443 GH3 auxin-responsive promoter; Region: GH3; cl04006 871585003444 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 871585003445 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 871585003446 putative substrate translocation pore; other site 871585003447 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 871585003448 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 871585003449 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 871585003450 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 871585003451 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 871585003452 FAD binding site [chemical binding]; other site 871585003453 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 871585003454 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 871585003455 nudix motif; other site 871585003456 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 871585003457 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 871585003458 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 871585003459 active site 871585003460 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 871585003461 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871585003462 active site 871585003463 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 871585003464 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 871585003465 Cupin domain; Region: Cupin_2; cl09118 871585003466 Helix-turn-helix domain; Region: HTH_18; pfam12833 871585003467 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585003468 Coenzyme A binding pocket [chemical binding]; other site 871585003469 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 871585003470 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 871585003471 Walker A/P-loop; other site 871585003472 ATP binding site [chemical binding]; other site 871585003473 Q-loop/lid; other site 871585003474 ABC transporter signature motif; other site 871585003475 Walker B; other site 871585003476 D-loop; other site 871585003477 H-loop/switch region; other site 871585003478 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 871585003479 ABC-ATPase subunit interface; other site 871585003480 dimer interface [polypeptide binding]; other site 871585003481 putative PBP binding regions; other site 871585003482 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 871585003483 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 871585003484 intersubunit interface [polypeptide binding]; other site 871585003485 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 871585003486 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 871585003487 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 871585003488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003489 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 871585003490 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 871585003491 putative substrate translocation pore; other site 871585003492 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 871585003493 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 871585003494 putative NAD(P) binding site [chemical binding]; other site 871585003495 active site 871585003496 putative substrate binding site [chemical binding]; other site 871585003497 potential frameshift: common BLAST hit: gi|184158204|ref|YP_001846543.1| transcriptional regulator 871585003498 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 871585003499 Helix-turn-helix domains; Region: HTH; cl00088 871585003500 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 871585003501 dimerization interface [polypeptide binding]; other site 871585003502 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 871585003503 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 871585003504 potential frameshift: common BLAST hit: gi|299770066|ref|YP_003732092.1| dihydroxy-acid dehydratase 871585003505 Dehydratase family; Region: ILVD_EDD; cl00340 871585003506 Dehydratase family; Region: ILVD_EDD; cl00340 871585003507 potential frameshift: common BLAST hit: gi|215483357|ref|YP_002325568.1| NADP-dependent fatty aldehyde dehydrogenase 871585003508 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 871585003509 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 871585003510 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 871585003511 dimer interface [polypeptide binding]; other site 871585003512 NADP binding site [chemical binding]; other site 871585003513 catalytic residues [active] 871585003514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585003515 Helix-turn-helix domains; Region: HTH; cl00088 871585003516 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 871585003517 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 871585003518 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 871585003519 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 871585003520 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 871585003521 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 871585003522 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 871585003523 Spore germination protein; Region: Spore_permease; cl15802 871585003524 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 871585003525 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585003526 tetrameric interface [polypeptide binding]; other site 871585003527 NAD binding site [chemical binding]; other site 871585003528 catalytic residues [active] 871585003529 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 871585003530 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 871585003531 inhibitor-cofactor binding pocket; inhibition site 871585003532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585003533 catalytic residue [active] 871585003534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585003535 Helix-turn-helix domains; Region: HTH; cl00088 871585003536 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 871585003537 dimerization interface [polypeptide binding]; other site 871585003538 haemagglutination activity domain; Region: Haemagg_act; cl05436 871585003539 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 871585003540 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 871585003541 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 871585003542 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 871585003543 Surface antigen; Region: Bac_surface_Ag; cl03097 871585003544 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 871585003545 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 871585003546 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 871585003547 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 871585003548 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 871585003549 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 871585003550 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 871585003551 hypothetical protein; Validated; Region: PRK06201 871585003552 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 871585003553 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 871585003554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003555 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 871585003556 putative substrate translocation pore; other site 871585003557 Transcriptional regulator [Transcription]; Region: IclR; COG1414 871585003558 Bacterial transcriptional regulator; Region: IclR; pfam01614 871585003559 Protein of unknown function, DUF606; Region: DUF606; cl01273 871585003560 Protein of unknown function, DUF606; Region: DUF606; cl01273 871585003561 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585003562 Helix-turn-helix domains; Region: HTH; cl00088 871585003563 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 871585003564 putative effector binding pocket; other site 871585003565 dimerization interface [polypeptide binding]; other site 871585003566 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 871585003567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 871585003568 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 871585003569 PAAR motif; Region: PAAR_motif; cl15808 871585003570 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 871585003571 Helix-turn-helix domains; Region: HTH; cl00088 871585003572 bile acid transporter; Region: bass; TIGR00841 871585003573 Membrane transport protein; Region: Mem_trans; cl09117 871585003574 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 871585003575 AMP-binding enzyme; Region: AMP-binding; cl15778 871585003576 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585003577 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 871585003578 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 871585003579 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585003580 active site 871585003581 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 871585003582 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 871585003583 putative active site [active] 871585003584 putative catalytic site [active] 871585003585 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 871585003586 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 871585003587 NAD binding site [chemical binding]; other site 871585003588 homodimer interface [polypeptide binding]; other site 871585003589 active site 871585003590 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 871585003591 classical (c) SDRs; Region: SDR_c; cd05233 871585003592 NAD(P) binding site [chemical binding]; other site 871585003593 active site 871585003594 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 871585003595 classical (c) SDRs; Region: SDR_c; cd05233 871585003596 NAD(P) binding site [chemical binding]; other site 871585003597 active site 871585003598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585003599 Helix-turn-helix domains; Region: HTH; cl00088 871585003600 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 871585003601 substrate binding pocket [chemical binding]; other site 871585003602 dimerization interface [polypeptide binding]; other site 871585003603 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585003604 Helix-turn-helix domains; Region: HTH; cl00088 871585003605 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585003606 Helix-turn-helix domains; Region: HTH; cl00088 871585003607 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 871585003608 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 871585003609 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 871585003610 potential catalytic triad [active] 871585003611 conserved cys residue [active] 871585003612 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 871585003613 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 871585003614 DNA binding residues [nucleotide binding] 871585003615 Uncharacterized conserved protein [Function unknown]; Region: COG3268 871585003616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003617 NAD(P) binding site [chemical binding]; other site 871585003618 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 871585003619 putative active site [active] 871585003620 putative FMN binding site [chemical binding]; other site 871585003621 putative substrate binding site [chemical binding]; other site 871585003622 putative catalytic residue [active] 871585003623 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 871585003624 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 871585003625 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 871585003626 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 871585003627 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 871585003628 catalytic Zn binding site [ion binding]; other site 871585003629 NAD binding site [chemical binding]; other site 871585003630 structural Zn binding site [ion binding]; other site 871585003631 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 871585003632 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585003633 NAD(P) binding site [chemical binding]; other site 871585003634 catalytic residues [active] 871585003635 4-hydroxybenzoate 3-monooxygenase; Region: pbenz_hydroxyl; TIGR02360 871585003636 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585003637 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 871585003638 dimer interface [polypeptide binding]; other site 871585003639 NADP binding site [chemical binding]; other site 871585003640 catalytic residues [active] 871585003641 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 871585003642 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 871585003643 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 871585003644 putative substrate translocation pore; other site 871585003645 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 871585003646 Dehydratase family; Region: ILVD_EDD; cl00340 871585003647 Transcriptional regulators [Transcription]; Region: FadR; COG2186 871585003648 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585003649 DNA-binding site [nucleotide binding]; DNA binding site 871585003650 FCD domain; Region: FCD; cl11656 871585003651 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 871585003652 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 871585003653 Helix-turn-helix domains; Region: HTH; cl00088 871585003654 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 871585003655 dimerization interface [polypeptide binding]; other site 871585003656 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 871585003657 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 871585003658 octamer interface [polypeptide binding]; other site 871585003659 active site 871585003660 Muconolactone delta-isomerase; Region: MIase; cl01992 871585003661 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 871585003662 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 871585003663 dimer interface [polypeptide binding]; other site 871585003664 active site 871585003665 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 871585003666 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 871585003667 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 871585003668 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 871585003669 dimer interface [polypeptide binding]; other site 871585003670 active site 871585003671 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 871585003672 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 871585003673 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 871585003674 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 871585003675 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 871585003676 active site 871585003677 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 871585003678 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585003679 NAD(P) binding site [chemical binding]; other site 871585003680 catalytic residues [active] 871585003681 choline dehydrogenase; Validated; Region: PRK02106 871585003682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003683 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 871585003684 tyramine oxidase; Provisional; Region: tynA; PRK14696 871585003685 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 871585003686 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 871585003687 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 871585003688 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 871585003689 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585003690 Flavin Reductases; Region: FlaRed; cl00801 871585003691 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 871585003692 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 871585003693 FMN-binding pocket [chemical binding]; other site 871585003694 flavin binding motif; other site 871585003695 phosphate binding motif [ion binding]; other site 871585003696 beta-alpha-beta structure motif; other site 871585003697 NAD binding pocket [chemical binding]; other site 871585003698 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 871585003699 catalytic loop [active] 871585003700 iron binding site [ion binding]; other site 871585003701 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 871585003702 classical (c) SDRs; Region: SDR_c; cd05233 871585003703 NAD(P) binding site [chemical binding]; other site 871585003704 active site 871585003705 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 871585003706 inter-subunit interface; other site 871585003707 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 871585003708 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 871585003709 [2Fe-2S] cluster binding site [ion binding]; other site 871585003710 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 871585003711 putative alpha subunit interface [polypeptide binding]; other site 871585003712 putative active site [active] 871585003713 putative substrate binding site [chemical binding]; other site 871585003714 Fe binding site [ion binding]; other site 871585003715 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 871585003716 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585003717 active site 871585003718 Amidase; Region: Amidase; cl11426 871585003719 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 871585003720 Helix-turn-helix domains; Region: HTH; cl00088 871585003721 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 871585003722 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871585003723 putative substrate translocation pore; other site 871585003724 outer membrane porin, OprD family; Region: OprD; pfam03573 871585003725 short chain dehydrogenase; Provisional; Region: PRK08251 871585003726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003727 NAD(P) binding site [chemical binding]; other site 871585003728 active site 871585003729 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 871585003730 catalytic core [active] 871585003731 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 871585003732 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 871585003733 putative active site [active] 871585003734 putative substrate binding site [chemical binding]; other site 871585003735 ATP binding site [chemical binding]; other site 871585003736 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585003737 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585003738 active site 871585003739 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585003740 Helix-turn-helix domains; Region: HTH; cl00088 871585003741 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 871585003742 substrate binding pocket [chemical binding]; other site 871585003743 dimerization interface [polypeptide binding]; other site 871585003744 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 871585003745 Helix-turn-helix domains; Region: HTH; cl00088 871585003746 Bacterial transcriptional regulator; Region: IclR; pfam01614 871585003747 potential frameshift: common BLAST hit: gi|215483273|ref|YP_002325480.1| Metallo-beta-lactamase superfamily protein 871585003748 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585003749 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585003750 Predicted transporter component [General function prediction only]; Region: COG2391 871585003751 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 871585003752 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 871585003753 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 871585003754 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 871585003755 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 871585003756 Trp docking motif [polypeptide binding]; other site 871585003757 putative active site [active] 871585003758 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 871585003759 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 871585003760 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 871585003761 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 871585003762 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 871585003763 active site 871585003764 catalytic residue [active] 871585003765 dimer interface [polypeptide binding]; other site 871585003766 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 871585003767 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 871585003768 heterodimer interface [polypeptide binding]; other site 871585003769 active site 871585003770 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 871585003771 heterodimer interface [polypeptide binding]; other site 871585003772 multimer interface [polypeptide binding]; other site 871585003773 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 871585003774 active site 871585003775 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 871585003776 benzoate transport; Region: 2A0115; TIGR00895 871585003777 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 871585003778 putative substrate translocation pore; other site 871585003779 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 871585003780 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 871585003781 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 871585003782 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 871585003783 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 871585003784 tetramer interface [polypeptide binding]; other site 871585003785 active site 871585003786 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 871585003787 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 871585003788 dimer interface [polypeptide binding]; other site 871585003789 active site 871585003790 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 871585003791 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 871585003792 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 871585003793 substrate binding site; other site 871585003794 dimer interface; other site 871585003795 Septum formation initiator; Region: DivIC; cl11433 871585003796 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 871585003797 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 871585003798 N-terminal plug; other site 871585003799 ligand-binding site [chemical binding]; other site 871585003800 Protein of unknown function (DUF421); Region: DUF421; cl00990 871585003801 enolase; Provisional; Region: eno; PRK00077 871585003802 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 871585003803 dimer interface [polypeptide binding]; other site 871585003804 metal binding site [ion binding]; metal-binding site 871585003805 substrate binding pocket [chemical binding]; other site 871585003806 NeuB family; Region: NeuB; cl00496 871585003807 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 871585003808 CTP synthetase; Validated; Region: pyrG; PRK05380 871585003809 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 871585003810 Catalytic site [active] 871585003811 active site 871585003812 UTP binding site [chemical binding]; other site 871585003813 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 871585003814 active site 871585003815 putative oxyanion hole; other site 871585003816 catalytic triad [active] 871585003817 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 871585003818 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 871585003819 hydrolase; Region: PLN02511 871585003820 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 871585003821 active site 871585003822 catalytic triad [active] 871585003823 oxyanion hole [active] 871585003824 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 871585003825 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 871585003826 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 871585003827 active site 871585003828 FMN binding site [chemical binding]; other site 871585003829 2,4-decadienoyl-CoA binding site; other site 871585003830 catalytic residue [active] 871585003831 4Fe-4S cluster binding site [ion binding]; other site 871585003832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003833 Helix-turn-helix domains; Region: HTH; cl00088 871585003834 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 871585003835 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585003836 NeuB family; Region: NeuB; cl00496 871585003837 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 871585003838 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 871585003839 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 871585003840 Clp amino terminal domain; Region: Clp_N; pfam02861 871585003841 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 871585003842 Walker A motif; other site 871585003843 ATP binding site [chemical binding]; other site 871585003844 Walker B motif; other site 871585003845 arginine finger; other site 871585003846 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 871585003847 Walker A motif; other site 871585003848 ATP binding site [chemical binding]; other site 871585003849 Walker B motif; other site 871585003850 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 871585003851 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 871585003852 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 871585003853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003854 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 871585003855 Protein of unknown function DUF45; Region: DUF45; cl00636 871585003856 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 871585003857 tetramer (dimer of dimers) interface [polypeptide binding]; other site 871585003858 active site 871585003859 dimer interface [polypeptide binding]; other site 871585003860 threonine dehydratase; Reviewed; Region: PRK09224 871585003861 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 871585003862 tetramer interface [polypeptide binding]; other site 871585003863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585003864 catalytic residue [active] 871585003865 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 871585003866 putative Ile/Val binding site [chemical binding]; other site 871585003867 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 871585003868 putative Ile/Val binding site [chemical binding]; other site 871585003869 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 871585003870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585003871 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 871585003872 Cation transport protein; Region: TrkH; cl10514 871585003873 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 871585003874 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 871585003875 dimerization interface [polypeptide binding]; other site 871585003876 substrate binding site [chemical binding]; other site 871585003877 active site 871585003878 calcium binding site [ion binding]; other site 871585003879 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 871585003880 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 871585003881 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 871585003882 Peptidase M16C associated; Region: M16C_assoc; pfam08367 871585003883 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 871585003884 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 871585003885 substrate binding site [chemical binding]; other site 871585003886 ATP binding site [chemical binding]; other site 871585003887 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 871585003888 iron-sulfur cluster [ion binding]; other site 871585003889 [2Fe-2S] cluster binding site [ion binding]; other site 871585003890 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 871585003891 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 871585003892 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 871585003893 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 871585003894 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 871585003895 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 871585003896 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 871585003897 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 871585003898 dimer interface [polypeptide binding]; other site 871585003899 FMN binding site [chemical binding]; other site 871585003900 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 871585003901 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 871585003902 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 871585003903 P loop; other site 871585003904 GTP binding site [chemical binding]; other site 871585003905 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 871585003906 FOG: CBS domain [General function prediction only]; Region: COG0517 871585003907 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 871585003908 acetylornithine aminotransferase; Provisional; Region: PRK02627 871585003909 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 871585003910 inhibitor-cofactor binding pocket; inhibition site 871585003911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585003912 catalytic residue [active] 871585003913 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 871585003914 putative GSH binding site [chemical binding]; other site 871585003915 catalytic residues [active] 871585003916 LysR family transcriptional regulator; Provisional; Region: PRK14997 871585003917 Helix-turn-helix domains; Region: HTH; cl00088 871585003918 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 871585003919 putative effector binding pocket; other site 871585003920 putative dimerization interface [polypeptide binding]; other site 871585003921 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 871585003922 active site 871585003923 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 871585003924 Domain of unknown function (DUF336); Region: DUF336; cl01249 871585003925 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 871585003926 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 871585003927 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 871585003928 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 871585003929 active site 871585003930 phosphorylation site [posttranslational modification] 871585003931 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 871585003932 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 871585003933 dimerization domain swap beta strand [polypeptide binding]; other site 871585003934 regulatory protein interface [polypeptide binding]; other site 871585003935 active site 871585003936 regulatory phosphorylation site [posttranslational modification]; other site 871585003937 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 871585003938 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 871585003939 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 871585003940 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 871585003941 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 871585003942 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 871585003943 putative substrate binding site [chemical binding]; other site 871585003944 putative ATP binding site [chemical binding]; other site 871585003945 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 871585003946 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 871585003947 active site 871585003948 P-loop; other site 871585003949 phosphorylation site [posttranslational modification] 871585003950 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 871585003951 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 871585003952 Helix-turn-helix domains; Region: HTH; cl00088 871585003953 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 871585003954 PAS domain; Region: PAS_9; pfam13426 871585003955 putative active site [active] 871585003956 heme pocket [chemical binding]; other site 871585003957 PAS fold; Region: PAS_4; pfam08448 871585003958 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871585003959 metal binding site [ion binding]; metal-binding site 871585003960 active site 871585003961 I-site; other site 871585003962 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 871585003963 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 871585003964 Ligand Binding Site [chemical binding]; other site 871585003965 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 871585003966 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 871585003967 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 871585003968 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 871585003969 Sulfate transporter family; Region: Sulfate_transp; cl15842 871585003970 Sulfate transporter family; Region: Sulfate_transp; cl15842 871585003971 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 871585003972 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 871585003973 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 871585003974 calcium binding site 2 [ion binding]; other site 871585003975 active site 871585003976 catalytic triad [active] 871585003977 calcium binding site 1 [ion binding]; other site 871585003978 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 871585003979 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 871585003980 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 871585003981 kynureninase; Region: kynureninase; TIGR01814 871585003982 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871585003983 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 871585003984 putative DNA binding site [nucleotide binding]; other site 871585003985 putative Zn2+ binding site [ion binding]; other site 871585003986 Helix-turn-helix domains; Region: HTH; cl00088 871585003987 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 871585003988 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585003989 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 871585003990 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 871585003991 motif II; other site 871585003992 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 871585003993 RNA binding surface [nucleotide binding]; other site 871585003994 recombinase A; Provisional; Region: recA; PRK09354 871585003995 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 871585003996 hexamer interface [polypeptide binding]; other site 871585003997 Walker A motif; other site 871585003998 ATP binding site [chemical binding]; other site 871585003999 Walker B motif; other site 871585004000 RecX family; Region: RecX; cl00936 871585004001 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 871585004002 potential frameshift: common BLAST hit: gi|299769710|ref|YP_003731736.1| UDP-N-acetylglucosamine acyltransferase 871585004003 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 871585004004 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 871585004005 active site 871585004006 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 871585004007 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 871585004008 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 871585004009 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 871585004010 trimer interface [polypeptide binding]; other site 871585004011 active site 871585004012 UDP-GlcNAc binding site [chemical binding]; other site 871585004013 lipid binding site [chemical binding]; lipid-binding site 871585004014 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 871585004015 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 871585004016 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 871585004017 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 871585004018 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 871585004019 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 871585004020 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 871585004021 Surface antigen; Region: Bac_surface_Ag; cl03097 871585004022 potential frameshift: common BLAST hit: gi|299769705|ref|YP_003731731.1| putative membrane-associated Zn-dependent proteases 1 871585004023 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 871585004024 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 871585004025 putative substrate binding region [chemical binding]; other site 871585004026 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 871585004027 active site 871585004028 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 871585004029 protein binding site [polypeptide binding]; other site 871585004030 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 871585004031 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 871585004032 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 871585004033 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 871585004034 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 871585004035 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 871585004036 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 871585004037 catalytic residue [active] 871585004038 putative FPP diphosphate binding site; other site 871585004039 putative FPP binding hydrophobic cleft; other site 871585004040 dimer interface [polypeptide binding]; other site 871585004041 putative IPP diphosphate binding site; other site 871585004042 ribosome recycling factor; Reviewed; Region: frr; PRK00083 871585004043 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 871585004044 hinge region; other site 871585004045 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 871585004046 putative nucleotide binding site [chemical binding]; other site 871585004047 uridine monophosphate binding site [chemical binding]; other site 871585004048 homohexameric interface [polypeptide binding]; other site 871585004049 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 871585004050 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 871585004051 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 871585004052 FeS/SAM binding site; other site 871585004053 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 871585004054 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 871585004055 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 871585004056 dimer interface [polypeptide binding]; other site 871585004057 phosphorylation site [posttranslational modification] 871585004058 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 871585004059 ATP binding site [chemical binding]; other site 871585004060 Mg2+ binding site [ion binding]; other site 871585004061 G-X-G motif; other site 871585004062 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 871585004063 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 871585004064 active site 871585004065 phosphorylation site [posttranslational modification] 871585004066 intermolecular recognition site; other site 871585004067 dimerization interface [polypeptide binding]; other site 871585004068 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 871585004069 Walker A motif; other site 871585004070 ATP binding site [chemical binding]; other site 871585004071 Walker B motif; other site 871585004072 arginine finger; other site 871585004073 Helix-turn-helix domains; Region: HTH; cl00088 871585004074 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585004075 Helix-turn-helix domains; Region: HTH; cl00088 871585004076 ornithine carbamoyltransferase; Provisional; Region: PRK00779 871585004077 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 871585004078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004079 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 871585004080 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 871585004081 homotrimer interaction site [polypeptide binding]; other site 871585004082 zinc binding site [ion binding]; other site 871585004083 CDP-binding sites; other site 871585004084 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 871585004085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004086 Sensors of blue-light using FAD; Region: BLUF; cl04855 871585004087 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585004088 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 871585004089 Fe-S protein assembly chaperone HscA; Region: HscA; TIGR01991 871585004090 fumarate hydratase; Reviewed; Region: fumC; PRK00485 871585004091 Class II fumarases; Region: Fumarase_classII; cd01362 871585004092 active site 871585004093 tetramer interface [polypeptide binding]; other site 871585004094 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 871585004095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004096 NAD(P) binding site [chemical binding]; other site 871585004097 active site 871585004098 DsrE/DsrF-like family; Region: DrsE; cl00672 871585004099 DsrC like protein; Region: DsrC; cl01101 871585004100 EamA-like transporter family; Region: EamA; cl01037 871585004101 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585004102 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 871585004103 DNA-binding site [nucleotide binding]; DNA binding site 871585004104 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 871585004105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585004106 homodimer interface [polypeptide binding]; other site 871585004107 catalytic residue [active] 871585004108 Helix-turn-helix domains; Region: HTH; cl00088 871585004109 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 871585004110 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 871585004111 dimer interface [polypeptide binding]; other site 871585004112 putative functional site; other site 871585004113 putative MPT binding site; other site 871585004114 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 871585004115 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 871585004116 trimer interface [polypeptide binding]; other site 871585004117 dimer interface [polypeptide binding]; other site 871585004118 putative active site [active] 871585004119 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 871585004120 MPT binding site; other site 871585004121 trimer interface [polypeptide binding]; other site 871585004122 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 871585004123 MoaE homodimer interface [polypeptide binding]; other site 871585004124 MoaD interaction [polypeptide binding]; other site 871585004125 active site residues [active] 871585004126 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 871585004127 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 871585004128 FeS/SAM binding site; other site 871585004129 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 871585004130 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871585004131 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 871585004132 molybdopterin cofactor binding site; other site 871585004133 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 871585004134 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 871585004135 putative molybdopterin cofactor binding site; other site 871585004136 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 871585004137 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 871585004138 GTP binding site; other site 871585004139 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 871585004140 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 871585004141 [4Fe-4S] binding site [ion binding]; other site 871585004142 molybdopterin cofactor binding site; other site 871585004143 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 871585004144 molybdopterin cofactor binding site; other site 871585004145 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 871585004146 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 871585004147 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 871585004148 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 871585004149 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585004150 nitrite reductase subunit NirD; Provisional; Region: PRK14989 871585004151 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585004152 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 871585004153 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 871585004154 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 871585004155 active site 871585004156 phosphorylation site [posttranslational modification] 871585004157 intermolecular recognition site; other site 871585004158 dimerization interface [polypeptide binding]; other site 871585004159 ANTAR domain; Region: ANTAR; cl04297 871585004160 NMT1-like family; Region: NMT1_2; cl15260 871585004161 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 871585004162 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 871585004163 dimer interface [polypeptide binding]; other site 871585004164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585004165 catalytic residue [active] 871585004166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004167 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 871585004168 IucA / IucC family; Region: IucA_IucC; pfam04183 871585004169 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 871585004170 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 871585004171 drug efflux system protein MdtG; Provisional; Region: PRK09874 871585004172 putative substrate translocation pore; other site 871585004173 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 871585004174 IucA / IucC family; Region: IucA_IucC; pfam04183 871585004175 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 871585004176 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 871585004177 IucA / IucC family; Region: IucA_IucC; pfam04183 871585004178 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 871585004179 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 871585004180 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 871585004181 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 871585004182 N-terminal plug; other site 871585004183 ligand-binding site [chemical binding]; other site 871585004184 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 871585004185 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 871585004186 active site 871585004187 DNA binding site [nucleotide binding] 871585004188 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 871585004189 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 871585004190 trimer interface [polypeptide binding]; other site 871585004191 active site 871585004192 dimer interface [polypeptide binding]; other site 871585004193 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 871585004194 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 871585004195 carboxyltransferase (CT) interaction site; other site 871585004196 biotinylation site [posttranslational modification]; other site 871585004197 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 871585004198 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871585004199 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585004200 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 871585004201 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 871585004202 putative substrate translocation pore; other site 871585004203 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 871585004204 Spore Coat Protein U domain; Region: SCPU; cl02253 871585004205 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 871585004206 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 871585004207 PapC C-terminal domain; Region: PapC_C; pfam13953 871585004208 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 871585004209 Spore Coat Protein U domain; Region: SCPU; cl02253 871585004210 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 871585004211 active site 871585004212 FMN binding site [chemical binding]; other site 871585004213 substrate binding site [chemical binding]; other site 871585004214 3Fe-4S cluster binding site [ion binding]; other site 871585004215 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 871585004216 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 871585004217 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 871585004218 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 871585004219 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 871585004220 putative active site [active] 871585004221 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 871585004222 FAD binding domain; Region: FAD_binding_4; pfam01565 871585004223 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 871585004224 Low molecular weight phosphatase family; Region: LMWPc; cd00115 871585004225 Helix-turn-helix domains; Region: HTH; cl00088 871585004226 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 871585004227 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 871585004228 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 871585004229 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 871585004230 putative active site [active] 871585004231 metal binding site [ion binding]; metal-binding site 871585004232 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 871585004233 active site 871585004234 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 871585004235 Phosphoesterase family; Region: Phosphoesterase; cl15450 871585004236 Domain of unknown function (DUF756); Region: DUF756; pfam05506 871585004237 Domain of unknown function (DUF756); Region: DUF756; pfam05506 871585004238 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 871585004239 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 871585004240 Walker A motif; other site 871585004241 ATP binding site [chemical binding]; other site 871585004242 Walker B motif; other site 871585004243 arginine finger; other site 871585004244 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 871585004245 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 871585004246 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 871585004247 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 871585004248 putative substrate translocation pore; other site 871585004249 TetR family transcriptional regulator; Provisional; Region: PRK14996 871585004250 Helix-turn-helix domains; Region: HTH; cl00088 871585004251 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585004252 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 871585004253 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 871585004254 active site 2 [active] 871585004255 active site 1 [active] 871585004256 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 871585004257 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004258 NAD(P) binding site [chemical binding]; other site 871585004259 active site 871585004260 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 871585004261 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 871585004262 dimer interface [polypeptide binding]; other site 871585004263 active site 871585004264 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 871585004265 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 871585004266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585004267 Helix-turn-helix domains; Region: HTH; cl00088 871585004268 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 871585004269 dimerization interface [polypeptide binding]; other site 871585004270 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 871585004271 transaldolase-like protein; Provisional; Region: PTZ00411 871585004272 active site 871585004273 dimer interface [polypeptide binding]; other site 871585004274 catalytic residue [active] 871585004275 LysE type translocator; Region: LysE; cl00565 871585004276 Helix-turn-helix domains; Region: HTH; cl00088 871585004277 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 871585004278 Benzoate membrane transport protein; Region: BenE; pfam03594 871585004279 benzoate transporter; Region: benE; TIGR00843 871585004280 RDD family; Region: RDD; cl00746 871585004281 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 871585004282 Ligand Binding Site [chemical binding]; other site 871585004283 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585004284 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 871585004285 Walker A/P-loop; other site 871585004286 ATP binding site [chemical binding]; other site 871585004287 Q-loop/lid; other site 871585004288 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 871585004289 ABC transporter signature motif; other site 871585004290 Walker B; other site 871585004291 D-loop; other site 871585004292 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585004293 Walker A/P-loop; other site 871585004294 ATP binding site [chemical binding]; other site 871585004295 Q-loop/lid; other site 871585004296 ABC transporter signature motif; other site 871585004297 Walker B; other site 871585004298 D-loop; other site 871585004299 H-loop/switch region; other site 871585004300 Predicted acetyltransferase [General function prediction only]; Region: COG3153 871585004301 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585004302 Coenzyme A binding pocket [chemical binding]; other site 871585004303 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 871585004304 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585004305 Helix-turn-helix domains; Region: HTH; cl00088 871585004306 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 871585004307 dimerization interface [polypeptide binding]; other site 871585004308 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585004309 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 871585004310 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 871585004311 catalytic residues [active] 871585004312 Gram-negative bacterial tonB protein; Region: TonB; cl10048 871585004313 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 871585004314 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 871585004315 catalytic triad [active] 871585004316 Helix-turn-helix domains; Region: HTH; cl00088 871585004317 metal binding site 2 [ion binding]; metal-binding site 871585004318 putative DNA binding helix; other site 871585004319 metal binding site 1 [ion binding]; metal-binding site 871585004320 structural Zn2+ binding site [ion binding]; other site 871585004321 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 871585004322 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 871585004323 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 871585004324 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 871585004325 N-terminal plug; other site 871585004326 ligand-binding site [chemical binding]; other site 871585004327 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 871585004328 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 871585004329 N-terminal plug; other site 871585004330 ligand-binding site [chemical binding]; other site 871585004331 Chorismate mutase type II; Region: CM_2; cl00693 871585004332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004333 active site 871585004334 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 871585004335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004336 NAD(P) binding site [chemical binding]; other site 871585004337 active site 871585004338 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 871585004339 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 871585004340 C-terminal domain interface [polypeptide binding]; other site 871585004341 GSH binding site (G-site) [chemical binding]; other site 871585004342 dimer interface [polypeptide binding]; other site 871585004343 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 871585004344 N-terminal domain interface [polypeptide binding]; other site 871585004345 Spore Coat Protein U domain; Region: SCPU; cl02253 871585004346 potential frameshift: common BLAST hit: gi|299769584|ref|YP_003731610.1| Hypothetical outer membrane usher protein yraJ precursor 871585004347 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 871585004348 PapC C-terminal domain; Region: PapC_C; pfam13953 871585004349 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 871585004350 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 871585004351 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 871585004352 Spore Coat Protein U domain; Region: SCPU; cl02253 871585004353 aminopeptidase N; Provisional; Region: pepN; PRK14015 871585004354 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 871585004355 active site 871585004356 Zn binding site [ion binding]; other site 871585004357 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 871585004358 substrate binding site [chemical binding]; other site 871585004359 multimerization interface [polypeptide binding]; other site 871585004360 ATP binding site [chemical binding]; other site 871585004361 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 871585004362 putative substrate binding pocket [chemical binding]; other site 871585004363 trimer interface [polypeptide binding]; other site 871585004364 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 871585004365 PIF1-like helicase; Region: PIF1; pfam05970 871585004366 Walker A motif; other site 871585004367 ATP binding site [chemical binding]; other site 871585004368 Walker B motif; other site 871585004369 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 871585004370 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 871585004371 putative alcohol dehydrogenase; Provisional; Region: PRK09860 871585004372 dimer interface [polypeptide binding]; other site 871585004373 active site 871585004374 metal binding site [ion binding]; metal-binding site 871585004375 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 871585004376 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 871585004377 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 871585004378 Helix-turn-helix domains; Region: HTH; cl00088 871585004379 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 871585004380 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585004381 NAD(P) binding site [chemical binding]; other site 871585004382 catalytic residues [active] 871585004383 ethanolamine permease; Region: 2A0305; TIGR00908 871585004384 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 871585004385 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 871585004386 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 871585004387 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 871585004388 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 871585004389 catalytic triad [active] 871585004390 potential frameshift: common BLAST hit: gi|215483057|ref|YP_002325262.1| glutaminyl-tRNA synthetase 871585004391 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 871585004392 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 871585004393 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 871585004394 active site 871585004395 HIGH motif; other site 871585004396 nucleotide binding site [chemical binding]; other site 871585004397 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 871585004398 KMSKS motif; other site 871585004399 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 871585004400 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 871585004401 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 871585004402 substrate binding site [chemical binding]; other site 871585004403 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 871585004404 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 871585004405 putative active site [active] 871585004406 putative metal binding site [ion binding]; other site 871585004407 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 871585004408 dimer interface [polypeptide binding]; other site 871585004409 FMN binding site [chemical binding]; other site 871585004410 EamA-like transporter family; Region: EamA; cl01037 871585004411 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 871585004412 Sm1 motif; other site 871585004413 intra - hexamer interaction site; other site 871585004414 inter - hexamer interaction site [polypeptide binding]; other site 871585004415 nucleotide binding pocket [chemical binding]; other site 871585004416 Sm2 motif; other site 871585004417 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 871585004418 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585004419 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 871585004420 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 871585004421 ATP binding site [chemical binding]; other site 871585004422 Mg2+ binding site [ion binding]; other site 871585004423 G-X-G motif; other site 871585004424 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 871585004425 ATP binding site [chemical binding]; other site 871585004426 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 871585004427 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 871585004428 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 871585004429 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 871585004430 probable active site [active] 871585004431 RelB antitoxin; Region: RelB; cl01171 871585004432 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 871585004433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585004434 Coenzyme A binding pocket [chemical binding]; other site 871585004435 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 871585004436 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 871585004437 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 871585004438 active site 871585004439 uracil binding [chemical binding]; other site 871585004440 Protein of unknown function (DUF441); Region: DUF441; cl01041 871585004441 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585004442 Helix-turn-helix domains; Region: HTH; cl00088 871585004443 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 871585004444 putative dimerization interface [polypeptide binding]; other site 871585004445 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 871585004446 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 871585004447 putative substrate translocation pore; other site 871585004448 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871585004449 Ion transport protein; Region: Ion_trans; pfam00520 871585004450 Ion channel; Region: Ion_trans_2; cl11596 871585004451 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 871585004452 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 871585004453 substrate binding site [chemical binding]; other site 871585004454 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 871585004455 substrate binding site [chemical binding]; other site 871585004456 ligand binding site [chemical binding]; other site 871585004457 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 871585004458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 871585004459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 871585004460 Family of unknown function (DUF490); Region: DUF490; pfam04357 871585004461 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 871585004462 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 871585004463 Surface antigen; Region: Bac_surface_Ag; cl03097 871585004464 lysophospholipid transporter LplT; Provisional; Region: PRK11195 871585004465 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 871585004466 putative substrate translocation pore; other site 871585004467 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 871585004468 diiron binding motif [ion binding]; other site 871585004469 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 871585004470 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 871585004471 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 871585004472 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 871585004473 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 871585004474 active site 871585004475 phosphorylation site [posttranslational modification] 871585004476 intermolecular recognition site; other site 871585004477 dimerization interface [polypeptide binding]; other site 871585004478 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 871585004479 DNA binding site [nucleotide binding] 871585004480 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 871585004481 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 871585004482 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 871585004483 Ligand Binding Site [chemical binding]; other site 871585004484 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 871585004485 dimer interface [polypeptide binding]; other site 871585004486 phosphorylation site [posttranslational modification] 871585004487 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 871585004488 ATP binding site [chemical binding]; other site 871585004489 Mg2+ binding site [ion binding]; other site 871585004490 G-X-G motif; other site 871585004491 K+-transporting ATPase, c chain; Region: KdpC; cl00944 871585004492 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 871585004493 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 871585004494 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 871585004495 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 871585004496 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 871585004497 catalytic center binding site [active] 871585004498 ATP binding site [chemical binding]; other site 871585004499 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 871585004500 homooctamer interface [polypeptide binding]; other site 871585004501 active site 871585004502 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585004503 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 871585004504 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 871585004505 ATP binding site [chemical binding]; other site 871585004506 substrate interface [chemical binding]; other site 871585004507 Flavin Reductases; Region: FlaRed; cl00801 871585004508 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585004509 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585004510 active site 871585004511 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 871585004512 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 871585004513 NAD binding site [chemical binding]; other site 871585004514 homodimer interface [polypeptide binding]; other site 871585004515 homotetramer interface [polypeptide binding]; other site 871585004516 active site 871585004517 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585004518 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585004519 SurA N-terminal domain; Region: SurA_N_3; cl07813 871585004520 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585004521 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 871585004522 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 871585004523 substrate binding pocket [chemical binding]; other site 871585004524 membrane-bound complex binding site; other site 871585004525 hinge residues; other site 871585004526 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871585004527 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 871585004528 putative PBP binding loops; other site 871585004529 ABC-ATPase subunit interface; other site 871585004530 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 871585004531 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 871585004532 peptide chain release factor 1; Validated; Region: prfA; PRK00591 871585004533 RF-1 domain; Region: RF-1; cl02875 871585004534 RF-1 domain; Region: RF-1; cl02875 871585004535 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 871585004536 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 871585004537 potential catalytic triad [active] 871585004538 conserved cys residue [active] 871585004539 Helix-turn-helix domains; Region: HTH; cl00088 871585004540 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 871585004541 putative effector binding pocket; other site 871585004542 dimerization interface [polypeptide binding]; other site 871585004543 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 871585004544 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 871585004545 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 871585004546 PgaD-like protein; Region: PgaD; cl14676 871585004547 N-glycosyltransferase; Provisional; Region: PRK11204 871585004548 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 871585004549 DXD motif; other site 871585004550 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 871585004551 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 871585004552 putative active site [active] 871585004553 putative metal binding site [ion binding]; other site 871585004554 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 871585004555 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 871585004556 phosphoenolpyruvate synthase; Validated; Region: PRK06464 871585004557 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 871585004558 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 871585004559 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 871585004560 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 871585004561 RDD family; Region: RDD; cl00746 871585004562 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 871585004563 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 871585004564 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 871585004565 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 871585004566 D-pathway; other site 871585004567 Putative ubiquinol binding site [chemical binding]; other site 871585004568 Low-spin heme (heme b) binding site [chemical binding]; other site 871585004569 Putative water exit pathway; other site 871585004570 Binuclear center (heme o3/CuB) [ion binding]; other site 871585004571 K-pathway; other site 871585004572 Putative proton exit pathway; other site 871585004573 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 871585004574 Subunit I/III interface [polypeptide binding]; other site 871585004575 Subunit III/IV interface [polypeptide binding]; other site 871585004576 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 871585004577 UbiA prenyltransferase family; Region: UbiA; cl00337 871585004578 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 871585004579 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 871585004580 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 871585004581 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 871585004582 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 871585004583 replicative DNA helicase; Region: DnaB; TIGR00665 871585004584 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 871585004585 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 871585004586 Walker A motif; other site 871585004587 ATP binding site [chemical binding]; other site 871585004588 Walker B motif; other site 871585004589 DNA binding loops [nucleotide binding] 871585004590 alanine racemase; Reviewed; Region: alr; PRK00053 871585004591 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 871585004592 active site 871585004593 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 871585004594 substrate binding site [chemical binding]; other site 871585004595 catalytic residues [active] 871585004596 dimer interface [polypeptide binding]; other site 871585004597 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 871585004598 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 871585004599 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 871585004600 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 871585004601 Uncharacterized conserved protein [Function unknown]; Region: COG2308 871585004602 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 871585004603 potential frameshift: common BLAST hit: gi|213158565|ref|YP_002319863.1| transcriptional factor 871585004604 Predicted transcriptional regulator [Transcription]; Region: COG2378 871585004605 WYL domain; Region: WYL; cl14852 871585004606 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 871585004607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004608 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 871585004609 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 871585004610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004611 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 871585004612 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 871585004613 Helix-turn-helix domains; Region: HTH; cl00088 871585004614 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 871585004615 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 871585004616 purine monophosphate binding site [chemical binding]; other site 871585004617 dimer interface [polypeptide binding]; other site 871585004618 putative catalytic residues [active] 871585004619 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 871585004620 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 871585004621 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 871585004622 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 871585004623 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585004624 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 871585004625 NMT1-like family; Region: NMT1_2; cl15260 871585004626 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 871585004627 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 871585004628 Walker A/P-loop; other site 871585004629 ATP binding site [chemical binding]; other site 871585004630 Q-loop/lid; other site 871585004631 ABC transporter signature motif; other site 871585004632 Walker B; other site 871585004633 D-loop; other site 871585004634 H-loop/switch region; other site 871585004635 NIL domain; Region: NIL; cl09633 871585004636 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 871585004637 dimer interface [polypeptide binding]; other site 871585004638 conserved gate region; other site 871585004639 ABC-ATPase subunit interface; other site 871585004640 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 871585004641 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585004642 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 871585004643 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 871585004644 Helix-turn-helix domains; Region: HTH; cl00088 871585004645 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 871585004646 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 871585004647 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 871585004648 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585004649 Helix-turn-helix domains; Region: HTH; cl00088 871585004650 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 871585004651 substrate binding pocket [chemical binding]; other site 871585004652 dimerization interface [polypeptide binding]; other site 871585004653 benzoate transport; Region: 2A0115; TIGR00895 871585004654 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 871585004655 putative substrate translocation pore; other site 871585004656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004657 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 871585004658 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 871585004659 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 871585004660 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585004661 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585004662 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585004663 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 871585004664 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 871585004665 iron-sulfur cluster [ion binding]; other site 871585004666 [2Fe-2S] cluster binding site [ion binding]; other site 871585004667 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 871585004668 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 871585004669 catalytic residues [active] 871585004670 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 871585004671 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871585004672 putative substrate translocation pore; other site 871585004673 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 871585004674 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 871585004675 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 871585004676 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 871585004677 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 871585004678 NADP binding site [chemical binding]; other site 871585004679 dimer interface [polypeptide binding]; other site 871585004680 aspartate racemase; Region: asp_race; TIGR00035 871585004681 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 871585004682 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 871585004683 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871585004684 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 871585004685 active site 871585004686 phosphorylation site [posttranslational modification] 871585004687 intermolecular recognition site; other site 871585004688 dimerization interface [polypeptide binding]; other site 871585004689 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 871585004690 DNA binding site [nucleotide binding] 871585004691 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871585004692 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 871585004693 dimer interface [polypeptide binding]; other site 871585004694 phosphorylation site [posttranslational modification] 871585004695 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 871585004696 ATP binding site [chemical binding]; other site 871585004697 Mg2+ binding site [ion binding]; other site 871585004698 G-X-G motif; other site 871585004699 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 871585004700 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 871585004701 S-adenosylmethionine binding site [chemical binding]; other site 871585004702 Phospholipid methyltransferase; Region: PEMT; cl00763 871585004703 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 871585004704 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 871585004705 S-adenosylmethionine binding site [chemical binding]; other site 871585004706 Uncharacterized conserved protein [Function unknown]; Region: COG3496 871585004707 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 871585004708 potential frameshift: common BLAST hit: gi|213158593|ref|YP_002319891.1| dehydrogenase 871585004709 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 871585004710 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 871585004711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004712 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 871585004713 Di-iron ligands [ion binding]; other site 871585004714 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 871585004715 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 871585004716 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 871585004717 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 871585004718 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 871585004719 dimer interface [polypeptide binding]; other site 871585004720 phosphorylation site [posttranslational modification] 871585004721 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 871585004722 ATP binding site [chemical binding]; other site 871585004723 Mg2+ binding site [ion binding]; other site 871585004724 G-X-G motif; other site 871585004725 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 871585004726 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 871585004727 active site 871585004728 phosphorylation site [posttranslational modification] 871585004729 intermolecular recognition site; other site 871585004730 dimerization interface [polypeptide binding]; other site 871585004731 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 871585004732 DNA binding site [nucleotide binding] 871585004733 Domain of unknown function (DUF336); Region: DUF336; cl01249 871585004734 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 871585004735 active site 871585004736 homotetramer interface [polypeptide binding]; other site 871585004737 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 871585004738 Helix-turn-helix domains; Region: HTH; cl00088 871585004739 Protein of unknown function (DUF330); Region: DUF330; cl01135 871585004740 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 871585004741 mce related protein; Region: MCE; pfam02470 871585004742 mce related protein; Region: MCE; pfam02470 871585004743 mce related protein; Region: MCE; pfam02470 871585004744 Paraquat-inducible protein A; Region: PqiA; pfam04403 871585004745 Paraquat-inducible protein A; Region: PqiA; pfam04403 871585004746 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 871585004747 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 871585004748 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 871585004749 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 871585004750 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 871585004751 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 871585004752 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 871585004753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585004754 homodimer interface [polypeptide binding]; other site 871585004755 catalytic residue [active] 871585004756 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585004757 Helix-turn-helix domains; Region: HTH; cl00088 871585004758 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 871585004759 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 871585004760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004761 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 871585004762 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 871585004763 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 871585004764 Sensors of blue-light using FAD; Region: BLUF; cl04855 871585004765 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 871585004766 DNA-binding site [nucleotide binding]; DNA binding site 871585004767 RNA-binding motif; other site 871585004768 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585004769 substrate binding site [chemical binding]; other site 871585004770 activation loop (A-loop); other site 871585004771 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 871585004772 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 871585004773 active site 871585004774 nucleophile elbow; other site 871585004775 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 871585004776 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 871585004777 Walker A motif; other site 871585004778 ATP binding site [chemical binding]; other site 871585004779 Walker B motif; other site 871585004780 UGMP family protein; Validated; Region: PRK09604 871585004781 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 871585004782 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 871585004783 GatB domain; Region: GatB_Yqey; cl11497 871585004784 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 871585004785 Peptidase family M48; Region: Peptidase_M48; cl12018 871585004786 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 871585004787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004788 Peptidase family M48; Region: Peptidase_M48; cl12018 871585004789 amidophosphoribosyltransferase; Provisional; Region: PRK09246 871585004790 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 871585004791 active site 871585004792 tetramer interface [polypeptide binding]; other site 871585004793 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871585004794 active site 871585004795 Colicin V production protein; Region: Colicin_V; cl00567 871585004796 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 871585004797 quinone interaction residues [chemical binding]; other site 871585004798 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 871585004799 active site 871585004800 catalytic residues [active] 871585004801 FMN binding site [chemical binding]; other site 871585004802 substrate binding site [chemical binding]; other site 871585004803 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 871585004804 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 871585004805 GspL periplasmic domain; Region: GspL_C; cl14909 871585004806 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 871585004807 catalytic core [active] 871585004808 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 871585004809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004810 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 871585004811 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 871585004812 putative FMN binding site [chemical binding]; other site 871585004813 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 871585004814 DEAD-like helicases superfamily; Region: DEXDc; smart00487 871585004815 ATP binding site [chemical binding]; other site 871585004816 Mg++ binding site [ion binding]; other site 871585004817 motif III; other site 871585004818 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 871585004819 nucleotide binding region [chemical binding]; other site 871585004820 ATP-binding site [chemical binding]; other site 871585004821 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 871585004822 DNA-binding site [nucleotide binding]; DNA binding site 871585004823 RNA-binding motif; other site 871585004824 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 871585004825 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 871585004826 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 871585004827 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871585004828 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 871585004829 DNA binding residues [nucleotide binding] 871585004830 Protein of unknown function (DUF423); Region: DUF423; cl01008 871585004831 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 871585004832 thiS-thiF/thiG interaction site; other site 871585004833 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 871585004834 ThiS interaction site; other site 871585004835 putative active site [active] 871585004836 tetramer interface [polypeptide binding]; other site 871585004837 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 871585004838 Protein of unknown function (DUF328); Region: DUF328; cl01143 871585004839 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 871585004840 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585004841 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 871585004842 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 871585004843 metal binding site [ion binding]; metal-binding site 871585004844 dimer interface [polypeptide binding]; other site 871585004845 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 871585004846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585004847 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 871585004848 hinge; other site 871585004849 active site 871585004850 Chorismate mutase type II; Region: CM_2; cl00693 871585004851 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 871585004852 Prephenate dehydratase; Region: PDT; pfam00800 871585004853 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 871585004854 putative L-Phe binding site [chemical binding]; other site 871585004855 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 871585004856 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585004857 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585004858 active site 871585004859 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 871585004860 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 871585004861 hypothetical protein; Validated; Region: PRK09071 871585004862 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 871585004863 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 871585004864 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 871585004865 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 871585004866 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 871585004867 Transglycosylase; Region: Transgly; cl07896 871585004868 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585004869 hypothetical protein; Provisional; Region: PRK08999 871585004870 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 871585004871 active site 871585004872 8-oxo-dGMP binding site [chemical binding]; other site 871585004873 nudix motif; other site 871585004874 metal binding site [ion binding]; metal-binding site 871585004875 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 871585004876 active site 871585004877 pyrophosphate binding site [ion binding]; other site 871585004878 thiamine phosphate binding site [chemical binding]; other site 871585004879 Hemin uptake protein hemP; Region: hemP; cl10043 871585004880 sensor protein QseC; Provisional; Region: PRK10337 871585004881 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 871585004882 dimer interface [polypeptide binding]; other site 871585004883 phosphorylation site [posttranslational modification] 871585004884 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 871585004885 ATP binding site [chemical binding]; other site 871585004886 Mg2+ binding site [ion binding]; other site 871585004887 G-X-G motif; other site 871585004888 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871585004889 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 871585004890 active site 871585004891 phosphorylation site [posttranslational modification] 871585004892 intermolecular recognition site; other site 871585004893 dimerization interface [polypeptide binding]; other site 871585004894 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 871585004895 DNA binding site [nucleotide binding] 871585004896 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 871585004897 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 871585004898 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 871585004899 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 871585004900 Walker A motif; other site 871585004901 ATP binding site [chemical binding]; other site 871585004902 Walker B motif; other site 871585004903 Predicted membrane protein [Function unknown]; Region: COG3174 871585004904 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 871585004905 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 871585004906 homodimer interaction site [polypeptide binding]; other site 871585004907 cofactor binding site; other site 871585004908 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 871585004909 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 871585004910 FAD binding pocket [chemical binding]; other site 871585004911 FAD binding motif [chemical binding]; other site 871585004912 phosphate binding motif [ion binding]; other site 871585004913 beta-alpha-beta structure motif; other site 871585004914 NAD binding pocket [chemical binding]; other site 871585004915 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 871585004916 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 871585004917 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 871585004918 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585004919 DNA-binding site [nucleotide binding]; DNA binding site 871585004920 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 871585004921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585004922 homodimer interface [polypeptide binding]; other site 871585004923 catalytic residue [active] 871585004924 putative protease; Provisional; Region: PRK15452 871585004925 Peptidase family U32; Region: Peptidase_U32; cl03113 871585004926 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 871585004927 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 871585004928 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 871585004929 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 871585004930 Walker A/P-loop; other site 871585004931 ATP binding site [chemical binding]; other site 871585004932 Q-loop/lid; other site 871585004933 ABC transporter signature motif; other site 871585004934 Walker B; other site 871585004935 D-loop; other site 871585004936 H-loop/switch region; other site 871585004937 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 871585004938 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 871585004939 dimer interface [polypeptide binding]; other site 871585004940 conserved gate region; other site 871585004941 putative PBP binding loops; other site 871585004942 ABC-ATPase subunit interface; other site 871585004943 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 871585004944 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 871585004945 dimer interface [polypeptide binding]; other site 871585004946 conserved gate region; other site 871585004947 putative PBP binding loops; other site 871585004948 ABC-ATPase subunit interface; other site 871585004949 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 871585004950 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 871585004951 substrate binding pocket [chemical binding]; other site 871585004952 membrane-bound complex binding site; other site 871585004953 hinge residues; other site 871585004954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585004955 Helix-turn-helix domains; Region: HTH; cl00088 871585004956 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 871585004957 putative effector binding pocket; other site 871585004958 putative dimerization interface [polypeptide binding]; other site 871585004959 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 871585004960 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 871585004961 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 871585004962 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 871585004963 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 871585004964 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 871585004965 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 871585004966 dimer interface [polypeptide binding]; other site 871585004967 active site 871585004968 glycine-pyridoxal phosphate binding site [chemical binding]; other site 871585004969 folate binding site [chemical binding]; other site 871585004970 Secretory lipase; Region: LIP; pfam03583 871585004971 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 871585004972 exodeoxyribonuclease X; Provisional; Region: PRK07983 871585004973 active site 871585004974 catalytic site [active] 871585004975 substrate binding site [chemical binding]; other site 871585004976 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 871585004977 paraquat-inducible protein B; Provisional; Region: PRK10807 871585004978 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 871585004979 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585004980 Walker A/P-loop; other site 871585004981 ATP binding site [chemical binding]; other site 871585004982 Q-loop/lid; other site 871585004983 ABC transporter signature motif; other site 871585004984 Walker B; other site 871585004985 D-loop; other site 871585004986 H-loop/switch region; other site 871585004987 ABC-2 type transporter; Region: ABC2_membrane; cl11417 871585004988 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 871585004989 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 871585004990 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 871585004991 Transglycosylase SLT domain; Region: SLT_2; pfam13406 871585004992 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 871585004993 N-acetyl-D-glucosamine binding site [chemical binding]; other site 871585004994 catalytic residue [active] 871585004995 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 871585004996 Protein of unknown function (DUF962); Region: DUF962; cl01879 871585004997 AzlC protein; Region: AzlC; cl00570 871585004998 Cupin domain; Region: Cupin_2; cl09118 871585004999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585005000 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585005001 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585005002 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 871585005003 elongation factor Ts; Provisional; Region: tsf; PRK09377 871585005004 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 871585005005 Elongation factor TS; Region: EF_TS; pfam00889 871585005006 Elongation factor TS; Region: EF_TS; pfam00889 871585005007 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 871585005008 rRNA interaction site [nucleotide binding]; other site 871585005009 S8 interaction site; other site 871585005010 putative laminin-1 binding site; other site 871585005011 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 871585005012 active site 871585005013 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 871585005014 nitrate transmembrane transporter; Provisional; Region: PLN00028 871585005015 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 871585005016 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 871585005017 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871585005018 putative substrate translocation pore; other site 871585005019 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 871585005020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585005021 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585005022 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 871585005023 lipoyl synthase; Provisional; Region: PRK05481 871585005024 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 871585005025 FeS/SAM binding site; other site 871585005026 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 871585005027 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585005028 active site 871585005029 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 871585005030 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 871585005031 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 871585005032 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 871585005033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585005034 oligomerization interface [polypeptide binding]; other site 871585005035 active site 871585005036 NAD+ binding site [chemical binding]; other site 871585005037 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 871585005038 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 871585005039 FAD binding site [chemical binding]; other site 871585005040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 871585005041 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 871585005042 RNase II stability modulator; Provisional; Region: PRK10060 871585005043 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 871585005044 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 871585005045 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871585005046 metal binding site [ion binding]; metal-binding site 871585005047 active site 871585005048 I-site; other site 871585005049 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 871585005050 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 871585005051 Malic enzyme, N-terminal domain; Region: malic; pfam00390 871585005052 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 871585005053 putative NAD(P) binding site [chemical binding]; other site 871585005054 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 871585005055 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 871585005056 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 871585005057 active site 871585005058 NTP binding site [chemical binding]; other site 871585005059 metal binding triad [ion binding]; metal-binding site 871585005060 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 871585005061 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 871585005062 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 871585005063 protein binding site [polypeptide binding]; other site 871585005064 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 871585005065 Uncharacterized conserved protein [Function unknown]; Region: COG0327 871585005066 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 871585005067 superoxide dismutase; Provisional; Region: PRK10543 871585005068 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 871585005069 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 871585005070 putative active site [active] 871585005071 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 871585005072 UbiA prenyltransferase family; Region: UbiA; cl00337 871585005073 UTRA domain; Region: UTRA; cl01230 871585005074 glutamine synthetase; Provisional; Region: glnA; PRK09469 871585005075 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 871585005076 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 871585005077 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 871585005078 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 871585005079 putative substrate translocation pore; other site 871585005080 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 871585005081 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 871585005082 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 871585005083 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 871585005084 active site 871585005085 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 871585005086 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 871585005087 glutamine binding [chemical binding]; other site 871585005088 catalytic triad [active] 871585005089 Peptidase family M1; Region: Peptidase_M1; pfam01433 871585005090 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 871585005091 Zn binding site [ion binding]; other site 871585005092 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 871585005093 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 871585005094 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 871585005095 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 871585005096 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 871585005097 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 871585005098 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 871585005099 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 871585005100 active site 871585005101 ribulose/triose binding site [chemical binding]; other site 871585005102 phosphate binding site [ion binding]; other site 871585005103 substrate (anthranilate) binding pocket [chemical binding]; other site 871585005104 product (indole) binding pocket [chemical binding]; other site 871585005105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 871585005106 Smr domain; Region: Smr; cl02619 871585005107 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 871585005108 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 871585005109 XdhC Rossmann domain; Region: XdhC_C; pfam13478 871585005110 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 871585005111 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 871585005112 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 871585005113 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 871585005114 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 871585005115 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 871585005116 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 871585005117 GTP cyclohydrolase I; Provisional; Region: PLN03044 871585005118 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 871585005119 homodecamer interface [polypeptide binding]; other site 871585005120 active site 871585005121 putative catalytic site residues [active] 871585005122 zinc binding site [ion binding]; other site 871585005123 GTP-CH-I/GFRP interaction surface; other site 871585005124 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 871585005125 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585005126 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 871585005127 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 871585005128 Protein of unknown function (DUF817); Region: DUF817; cl01520 871585005129 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 871585005130 substrate binding site [chemical binding]; other site 871585005131 active site 871585005132 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 871585005133 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 871585005134 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 871585005135 chorismate binding enzyme; Region: Chorismate_bind; cl10555 871585005136 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 871585005137 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 871585005138 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 871585005139 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 871585005140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585005141 Walker A/P-loop; other site 871585005142 ATP binding site [chemical binding]; other site 871585005143 Q-loop/lid; other site 871585005144 ABC transporter signature motif; other site 871585005145 Walker B; other site 871585005146 D-loop; other site 871585005147 H-loop/switch region; other site 871585005148 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 871585005149 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585005150 Walker A/P-loop; other site 871585005151 ATP binding site [chemical binding]; other site 871585005152 Q-loop/lid; other site 871585005153 ABC transporter signature motif; other site 871585005154 Walker B; other site 871585005155 D-loop; other site 871585005156 H-loop/switch region; other site 871585005157 potential frameshift: common BLAST hit: gi|184158896|ref|YP_001847235.1| histidine decarboxylase 871585005158 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 871585005159 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 871585005160 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871585005161 catalytic residue [active] 871585005162 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 871585005163 hydrophobic substrate binding pocket; other site 871585005164 Isochorismatase family; Region: Isochorismatase; pfam00857 871585005165 active site 871585005166 conserved cis-peptide bond; other site 871585005167 Phosphopantetheine attachment site; Region: PP-binding; cl09936 871585005168 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 871585005169 AMP-binding enzyme; Region: AMP-binding; cl15778 871585005170 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585005171 Condensation domain; Region: Condensation; pfam00668 871585005172 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 871585005173 Nonribosomal peptide synthase; Region: NRPS; pfam08415 871585005174 Condensation domain; Region: Condensation; pfam00668 871585005175 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 871585005176 Nonribosomal peptide synthase; Region: NRPS; pfam08415 871585005177 Phosphopantetheine attachment site; Region: PP-binding; cl09936 871585005178 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 871585005179 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 871585005180 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 871585005181 N-terminal plug; other site 871585005182 ligand-binding site [chemical binding]; other site 871585005183 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 871585005184 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 871585005185 putative ligand binding residues [chemical binding]; other site 871585005186 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 871585005187 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 871585005188 Walker A/P-loop; other site 871585005189 ATP binding site [chemical binding]; other site 871585005190 Q-loop/lid; other site 871585005191 ABC transporter signature motif; other site 871585005192 Walker B; other site 871585005193 D-loop; other site 871585005194 H-loop/switch region; other site 871585005195 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 871585005196 ABC-ATPase subunit interface; other site 871585005197 dimer interface [polypeptide binding]; other site 871585005198 putative PBP binding regions; other site 871585005199 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 871585005200 ABC-ATPase subunit interface; other site 871585005201 dimer interface [polypeptide binding]; other site 871585005202 putative PBP binding regions; other site 871585005203 peptide synthase; Validated; Region: PRK05691 871585005204 Phosphopantetheine attachment site; Region: PP-binding; cl09936 871585005205 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 871585005206 AMP-binding enzyme; Region: AMP-binding; cl15778 871585005207 AMP-binding enzyme; Region: AMP-binding; cl15778 871585005208 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 871585005209 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 871585005210 FAD binding pocket [chemical binding]; other site 871585005211 FAD binding motif [chemical binding]; other site 871585005212 phosphate binding motif [ion binding]; other site 871585005213 NAD binding pocket [chemical binding]; other site 871585005214 Pirin-related protein [General function prediction only]; Region: COG1741 871585005215 Cupin domain; Region: Cupin_2; cl09118 871585005216 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585005217 Helix-turn-helix domains; Region: HTH; cl00088 871585005218 Protein of unknown function (DUF466); Region: DUF466; cl01082 871585005219 carbon starvation protein A; Provisional; Region: PRK15015 871585005220 Carbon starvation protein CstA; Region: CstA; pfam02554 871585005221 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 871585005222 elongation factor P; Validated; Region: PRK00529 871585005223 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 871585005224 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 871585005225 RNA binding site [nucleotide binding]; other site 871585005226 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 871585005227 RNA binding site [nucleotide binding]; other site 871585005228 potential frameshift: common BLAST hit: gi|215482748|ref|YP_002324946.1| L-lysine 2,3-aminomutase(KAM) (LAM) 871585005229 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 871585005230 Radical SAM superfamily; Region: Radical_SAM; pfam04055 871585005231 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 871585005232 PAS domain S-box; Region: sensory_box; TIGR00229 871585005233 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 871585005234 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 871585005235 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 871585005236 Membrane transport protein; Region: Mem_trans; cl09117 871585005237 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 871585005238 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 871585005239 dimer interface [polypeptide binding]; other site 871585005240 active site 871585005241 glutathione binding site [chemical binding]; other site 871585005242 metal binding site [ion binding]; metal-binding site 871585005243 muropeptide transporter; Validated; Region: ampG; PRK11010 871585005244 AmpG-related permease; Region: 2A0125; TIGR00901 871585005245 muropeptide transporter; Validated; Region: ampG; PRK11010 871585005246 AAA domain; Region: AAA_32; pfam13654 871585005247 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 871585005248 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 871585005249 transcriptional regulator; Provisional; Region: PRK10632 871585005250 Helix-turn-helix domains; Region: HTH; cl00088 871585005251 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 871585005252 putative effector binding pocket; other site 871585005253 dimerization interface [polypeptide binding]; other site 871585005254 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 871585005255 putative peptidoglycan binding site; other site 871585005256 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 871585005257 Survival protein SurE; Region: SurE; cl00448 871585005258 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 871585005259 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585005260 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 871585005261 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 871585005262 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 871585005263 trimer interface [polypeptide binding]; other site 871585005264 putative metal binding site [ion binding]; other site 871585005265 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 871585005266 nudix motif; other site 871585005267 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 871585005268 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 871585005269 Protein of unknown function (DUF489); Region: DUF489; cl01097 871585005270 adenylosuccinate lyase; Provisional; Region: PRK09285 871585005271 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 871585005272 tetramer interface [polypeptide binding]; other site 871585005273 active site 871585005274 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 871585005275 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005276 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 871585005277 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 871585005278 tandem repeat interface [polypeptide binding]; other site 871585005279 oligomer interface [polypeptide binding]; other site 871585005280 active site residues [active] 871585005281 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 871585005282 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 871585005283 Walker A/P-loop; other site 871585005284 ATP binding site [chemical binding]; other site 871585005285 Q-loop/lid; other site 871585005286 ABC transporter signature motif; other site 871585005287 Walker B; other site 871585005288 D-loop; other site 871585005289 H-loop/switch region; other site 871585005290 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 871585005291 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 871585005292 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 871585005293 dimer interface [polypeptide binding]; other site 871585005294 conserved gate region; other site 871585005295 putative PBP binding loops; other site 871585005296 ABC-ATPase subunit interface; other site 871585005297 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 871585005298 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 871585005299 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 871585005300 dimer interface [polypeptide binding]; other site 871585005301 conserved gate region; other site 871585005302 putative PBP binding loops; other site 871585005303 ABC-ATPase subunit interface; other site 871585005304 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 871585005305 aromatic amino acid transporter; Provisional; Region: PRK10238 871585005306 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 871585005307 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 871585005308 dimer interface [polypeptide binding]; other site 871585005309 PYR/PP interface [polypeptide binding]; other site 871585005310 TPP binding site [chemical binding]; other site 871585005311 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 871585005312 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 871585005313 TPP-binding site [chemical binding]; other site 871585005314 dimer interface [polypeptide binding]; other site 871585005315 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871585005316 Helix-turn-helix domains; Region: HTH; cl00088 871585005317 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585005318 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 871585005319 NAD(P) binding site [chemical binding]; other site 871585005320 catalytic residues [active] 871585005321 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 871585005322 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 871585005323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585005324 catalytic residue [active] 871585005325 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 871585005326 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 871585005327 inhibitor-cofactor binding pocket; inhibition site 871585005328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585005329 catalytic residue [active] 871585005330 Protein of unknown function (DUF541); Region: SIMPL; cl01077 871585005331 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 871585005332 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 871585005333 putative di-iron ligands [ion binding]; other site 871585005334 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 871585005335 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 871585005336 FAD binding pocket [chemical binding]; other site 871585005337 FAD binding motif [chemical binding]; other site 871585005338 phosphate binding motif [ion binding]; other site 871585005339 beta-alpha-beta structure motif; other site 871585005340 NAD binding pocket [chemical binding]; other site 871585005341 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 871585005342 catalytic loop [active] 871585005343 iron binding site [ion binding]; other site 871585005344 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 871585005345 Helix-turn-helix domains; Region: HTH; cl00088 871585005346 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 871585005347 ATP-dependent helicase HepA; Validated; Region: PRK04914 871585005348 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 871585005349 ATP binding site [chemical binding]; other site 871585005350 putative Mg++ binding site [ion binding]; other site 871585005351 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 871585005352 nucleotide binding region [chemical binding]; other site 871585005353 ATP-binding site [chemical binding]; other site 871585005354 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 871585005355 active site 871585005356 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 871585005357 Phosphopantetheine attachment site; Region: PP-binding; cl09936 871585005358 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 871585005359 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 871585005360 inhibitor-cofactor binding pocket; inhibition site 871585005361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585005362 catalytic residue [active] 871585005363 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 871585005364 thiamine phosphate binding site [chemical binding]; other site 871585005365 active site 871585005366 pyrophosphate binding site [ion binding]; other site 871585005367 Protein of unknown function (DUF962); Region: DUF962; cl01879 871585005368 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 871585005369 putative active site [active] 871585005370 putative triphosphate binding site [ion binding]; other site 871585005371 putative metal binding residues [ion binding]; other site 871585005372 CHAD domain; Region: CHAD; cl10506 871585005373 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 871585005374 potential frameshift: common BLAST hit: gi|299769203|ref|YP_003731229.1| protease 871585005375 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 871585005376 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 871585005377 protease3; Provisional; Region: PRK15101 871585005378 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 871585005379 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 871585005380 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 871585005381 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 871585005382 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 871585005383 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 871585005384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585005385 Helix-turn-helix domains; Region: HTH; cl00088 871585005386 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 871585005387 putative dimerization interface [polypeptide binding]; other site 871585005388 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 871585005389 isocitrate dehydrogenase; Validated; Region: PRK07362 871585005390 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 871585005391 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines; Region: PseudoU_synth_RluE; cd02566 871585005392 pseudouridine synthase; Region: TIGR00093 871585005393 probable active site [active] 871585005394 potential frameshift: common BLAST hit: gi|184159009|ref|YP_001847348.1| monomeric isocitrate dehydrogenase 871585005395 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 871585005396 potential frameshift: common BLAST hit: gi|299769195|ref|YP_003731221.1| isocitrate dehydrogenase, NADP-dependent 871585005397 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 871585005398 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 871585005399 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 871585005400 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 871585005401 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 871585005402 protein binding site [polypeptide binding]; other site 871585005403 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 871585005404 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585005405 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 871585005406 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585005407 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 871585005408 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 871585005409 DNA photolyase; Region: DNA_photolyase; pfam00875 871585005410 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 871585005411 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 871585005412 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 871585005413 DXD motif; other site 871585005414 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 871585005415 TPR motif; other site 871585005416 binding surface 871585005417 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 871585005418 Nitronate monooxygenase; Region: NMO; pfam03060 871585005419 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 871585005420 FMN binding site [chemical binding]; other site 871585005421 substrate binding site [chemical binding]; other site 871585005422 putative catalytic residue [active] 871585005423 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 871585005424 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 871585005425 FMN binding site [chemical binding]; other site 871585005426 active site 871585005427 catalytic residues [active] 871585005428 substrate binding site [chemical binding]; other site 871585005429 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 871585005430 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 871585005431 gamma-glutamyl kinase; Provisional; Region: PRK05429 871585005432 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 871585005433 nucleotide binding site [chemical binding]; other site 871585005434 homotetrameric interface [polypeptide binding]; other site 871585005435 putative phosphate binding site [ion binding]; other site 871585005436 putative allosteric binding site; other site 871585005437 PUA domain; Region: PUA; cl00607 871585005438 GTPase CgtA; Reviewed; Region: obgE; PRK12298 871585005439 GTP1/OBG; Region: GTP1_OBG; pfam01018 871585005440 Obg GTPase; Region: Obg; cd01898 871585005441 G1 box; other site 871585005442 GTP/Mg2+ binding site [chemical binding]; other site 871585005443 Switch I region; other site 871585005444 G2 box; other site 871585005445 G3 box; other site 871585005446 Switch II region; other site 871585005447 G4 box; other site 871585005448 G5 box; other site 871585005449 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 871585005450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585005451 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 871585005452 Predicted permeases [General function prediction only]; Region: RarD; COG2962 871585005453 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 871585005454 excinuclease ABC subunit B; Provisional; Region: PRK05298 871585005455 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 871585005456 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 871585005457 ATP-binding site [chemical binding]; other site 871585005458 ATP binding site [chemical binding]; other site 871585005459 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 871585005460 nucleotide binding region [chemical binding]; other site 871585005461 ATP-binding site [chemical binding]; other site 871585005462 Ultra-violet resistance protein B; Region: UvrB; pfam12344 871585005463 UvrB/uvrC motif; Region: UVR; pfam02151 871585005464 hypothetical protein; Region: PHA00684 871585005465 PAS domain; Region: PAS_9; pfam13426 871585005466 PAS domain; Region: PAS_9; pfam13426 871585005467 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871585005468 metal binding site [ion binding]; metal-binding site 871585005469 active site 871585005470 I-site; other site 871585005471 aspartate aminotransferase; Provisional; Region: PRK05764 871585005472 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 871585005473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585005474 homodimer interface [polypeptide binding]; other site 871585005475 catalytic residue [active] 871585005476 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585005477 EamA-like transporter family; Region: EamA; cl01037 871585005478 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 871585005479 CoenzymeA binding site [chemical binding]; other site 871585005480 subunit interaction site [polypeptide binding]; other site 871585005481 PHB binding site; other site 871585005482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585005483 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 871585005484 NAD(P) binding site [chemical binding]; other site 871585005485 active site 871585005486 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 871585005487 active site 871585005488 dinuclear metal binding site [ion binding]; other site 871585005489 dimerization interface [polypeptide binding]; other site 871585005490 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 871585005491 active site 871585005492 hydrophilic channel; other site 871585005493 dimerization interface [polypeptide binding]; other site 871585005494 catalytic residues [active] 871585005495 active site lid [active] 871585005496 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 871585005497 Recombination protein O N terminal; Region: RecO_N; cl15812 871585005498 Recombination protein O C terminal; Region: RecO_C; pfam02565 871585005499 GTPase Era; Reviewed; Region: era; PRK00089 871585005500 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 871585005501 G1 box; other site 871585005502 GTP/Mg2+ binding site [chemical binding]; other site 871585005503 Switch I region; other site 871585005504 G2 box; other site 871585005505 Switch II region; other site 871585005506 G3 box; other site 871585005507 G4 box; other site 871585005508 G5 box; other site 871585005509 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 871585005510 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 871585005511 dimerization interface [polypeptide binding]; other site 871585005512 metal binding site [ion binding]; metal-binding site 871585005513 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 871585005514 dsRNA binding site [nucleotide binding]; other site 871585005515 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 871585005516 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 871585005517 Catalytic site [active] 871585005518 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 871585005519 GTP-binding protein LepA; Provisional; Region: PRK05433 871585005520 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 871585005521 G1 box; other site 871585005522 putative GEF interaction site [polypeptide binding]; other site 871585005523 GTP/Mg2+ binding site [chemical binding]; other site 871585005524 Switch I region; other site 871585005525 G2 box; other site 871585005526 G3 box; other site 871585005527 Switch II region; other site 871585005528 G4 box; other site 871585005529 G5 box; other site 871585005530 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 871585005531 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 871585005532 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 871585005533 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 871585005534 active site 871585005535 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 871585005536 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 871585005537 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 871585005538 protein binding site [polypeptide binding]; other site 871585005539 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 871585005540 protein binding site [polypeptide binding]; other site 871585005541 L-aspartate oxidase; Provisional; Region: PRK09077 871585005542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585005543 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 871585005544 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 871585005545 CoenzymeA binding site [chemical binding]; other site 871585005546 subunit interaction site [polypeptide binding]; other site 871585005547 PHB binding site; other site 871585005548 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 871585005549 thymidylate kinase; Validated; Region: tmk; PRK00698 871585005550 TMP-binding site; other site 871585005551 ATP-binding site [chemical binding]; other site 871585005552 YceG-like family; Region: YceG; pfam02618 871585005553 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 871585005554 dimerization interface [polypeptide binding]; other site 871585005555 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 871585005556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585005557 catalytic residue [active] 871585005558 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 871585005559 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 871585005560 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 871585005561 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 871585005562 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 871585005563 dimer interface [polypeptide binding]; other site 871585005564 conserved gate region; other site 871585005565 putative PBP binding loops; other site 871585005566 ABC-ATPase subunit interface; other site 871585005567 sulfate transport protein; Provisional; Region: cysT; CHL00187 871585005568 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 871585005569 dimer interface [polypeptide binding]; other site 871585005570 conserved gate region; other site 871585005571 putative PBP binding loops; other site 871585005572 ABC-ATPase subunit interface; other site 871585005573 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 871585005574 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 871585005575 Walker A/P-loop; other site 871585005576 ATP binding site [chemical binding]; other site 871585005577 Q-loop/lid; other site 871585005578 ABC transporter signature motif; other site 871585005579 Walker B; other site 871585005580 D-loop; other site 871585005581 H-loop/switch region; other site 871585005582 TOBE-like domain; Region: TOBE_3; pfam12857 871585005583 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 871585005584 Helix-turn-helix domains; Region: HTH; cl00088 871585005585 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 871585005586 substrate binding site [chemical binding]; other site 871585005587 dimerization interface [polypeptide binding]; other site 871585005588 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 871585005589 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 871585005590 active site 871585005591 substrate binding site [chemical binding]; other site 871585005592 trimer interface [polypeptide binding]; other site 871585005593 CoA binding site [chemical binding]; other site 871585005594 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 871585005595 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 871585005596 FeS/SAM binding site; other site 871585005597 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 871585005598 Ligand Binding Site [chemical binding]; other site 871585005599 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 871585005600 Ligand Binding Site [chemical binding]; other site 871585005601 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 871585005602 catalytic triad [active] 871585005603 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 871585005604 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 871585005605 dimer interface [polypeptide binding]; other site 871585005606 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 871585005607 ligand binding site [chemical binding]; other site 871585005608 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 871585005609 active site 871585005610 nucleotide binding site [chemical binding]; other site 871585005611 HIGH motif; other site 871585005612 KMSKS motif; other site 871585005613 enoyl-CoA hydratase; Provisional; Region: PRK06688 871585005614 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 871585005615 substrate binding site [chemical binding]; other site 871585005616 oxyanion hole (OAH) forming residues; other site 871585005617 trimer interface [polypeptide binding]; other site 871585005618 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 871585005619 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 871585005620 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 871585005621 putative substrate translocation pore; other site 871585005622 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 871585005623 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 871585005624 dimerization interface [polypeptide binding]; other site 871585005625 ATP binding site [chemical binding]; other site 871585005626 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 871585005627 dimerization interface [polypeptide binding]; other site 871585005628 ATP binding site [chemical binding]; other site 871585005629 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 871585005630 putative active site [active] 871585005631 catalytic triad [active] 871585005632 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 871585005633 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 871585005634 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 871585005635 RuvA N terminal domain; Region: RuvA_N; pfam01330 871585005636 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 871585005637 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 871585005638 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585005639 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 871585005640 Walker A motif; other site 871585005641 ATP binding site [chemical binding]; other site 871585005642 Walker B motif; other site 871585005643 arginine finger; other site 871585005644 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 871585005645 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 871585005646 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 871585005647 metal binding site [ion binding]; metal-binding site 871585005648 putative dimer interface [polypeptide binding]; other site 871585005649 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 871585005650 active site 871585005651 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 871585005652 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 871585005653 potential frameshift: common BLAST hit: gi|299769116|ref|YP_003731142.1| group A colicins tolerance protein 871585005654 translocation protein TolB; Provisional; Region: tolB; PRK04922 871585005655 TolB amino-terminal domain; Region: TolB_N; cl00639 871585005656 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 871585005657 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 871585005658 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 871585005659 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 871585005660 ligand binding site [chemical binding]; other site 871585005661 fructose-1,6-bisphosphatase family protein; Region: PLN02628 871585005662 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 871585005663 AMP binding site [chemical binding]; other site 871585005664 metal binding site [ion binding]; metal-binding site 871585005665 active site 871585005666 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 871585005667 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585005668 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 871585005669 RNA polymerase factor sigma-70; Validated; Region: PRK09047 871585005670 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871585005671 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 871585005672 DNA binding residues [nucleotide binding] 871585005673 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 871585005674 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 871585005675 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585005676 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 871585005677 Domain of unknown function DUF20; Region: UPF0118; pfam01594 871585005678 potential frameshift: common BLAST hit: gi|215482596|ref|YP_002324788.1| phosphoribosylaminoimidazole synthetase 871585005679 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 871585005680 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 871585005681 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 871585005682 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 871585005683 active site 871585005684 substrate binding site [chemical binding]; other site 871585005685 cosubstrate binding site; other site 871585005686 catalytic site [active] 871585005687 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585005688 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 871585005689 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 871585005690 tandem repeat interface [polypeptide binding]; other site 871585005691 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 871585005692 oligomer interface [polypeptide binding]; other site 871585005693 active site residues [active] 871585005694 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585005695 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 871585005696 putative acyl-acceptor binding pocket; other site 871585005697 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 871585005698 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 871585005699 Competence protein; Region: Competence; cl00471 871585005700 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585005701 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 871585005702 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 871585005703 Walker A/P-loop; other site 871585005704 ATP binding site [chemical binding]; other site 871585005705 Q-loop/lid; other site 871585005706 ABC transporter signature motif; other site 871585005707 Walker B; other site 871585005708 D-loop; other site 871585005709 H-loop/switch region; other site 871585005710 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 871585005711 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 871585005712 FtsX-like permease family; Region: FtsX; cl15850 871585005713 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 871585005714 EamA-like transporter family; Region: EamA; cl01037 871585005715 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 871585005716 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 871585005717 homodimer interface [polypeptide binding]; other site 871585005718 substrate-cofactor binding pocket; other site 871585005719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585005720 catalytic residue [active] 871585005721 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 871585005722 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 871585005723 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 871585005724 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 871585005725 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 871585005726 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 871585005727 ABC-2 type transporter; Region: ABC2_membrane; cl11417 871585005728 DNA gyrase subunit A; Validated; Region: PRK05560 871585005729 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 871585005730 CAP-like domain; other site 871585005731 active site 871585005732 primary dimer interface [polypeptide binding]; other site 871585005733 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871585005734 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871585005735 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871585005736 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871585005737 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871585005738 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871585005739 potential frameshift: common BLAST hit: gi|184159190|ref|YP_001847529.1| electron transfer flavoprotein subunit alpha 871585005740 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 871585005741 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 871585005742 Electron transfer flavoprotein domain; Region: ETF; pfam01012 871585005743 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 871585005744 Ligand binding site [chemical binding]; other site 871585005745 Electron transfer flavoprotein domain; Region: ETF; pfam01012 871585005746 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 871585005747 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 871585005748 active site 871585005749 DNA binding site [nucleotide binding] 871585005750 Int/Topo IB signature motif; other site 871585005751 LysE type translocator; Region: LysE; cl00565 871585005752 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585005753 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 871585005754 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 871585005755 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 871585005756 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 871585005757 diaminopimelate decarboxylase; Region: lysA; TIGR01048 871585005758 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 871585005759 active site 871585005760 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 871585005761 substrate binding site [chemical binding]; other site 871585005762 catalytic residues [active] 871585005763 dimer interface [polypeptide binding]; other site 871585005764 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 871585005765 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 871585005766 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 871585005767 DNA repair protein RadA; Provisional; Region: PRK11823 871585005768 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 871585005769 Walker A motif/ATP binding site; other site 871585005770 ATP binding site [chemical binding]; other site 871585005771 Walker B motif; other site 871585005772 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 871585005773 Tim44-like domain; Region: Tim44; cl09208 871585005774 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 871585005775 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 871585005776 motif 1; other site 871585005777 dimer interface [polypeptide binding]; other site 871585005778 active site 871585005779 motif 2; other site 871585005780 motif 3; other site 871585005781 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 871585005782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585005783 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 871585005784 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 871585005785 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 871585005786 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 871585005787 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 871585005788 putative molybdopterin cofactor binding site [chemical binding]; other site 871585005789 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 871585005790 putative molybdopterin cofactor binding site; other site 871585005791 Glycerate kinase family; Region: Gly_kinase; cl00841 871585005792 Helix-turn-helix domains; Region: HTH; cl00088 871585005793 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 871585005794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585005795 NAD(P) binding site [chemical binding]; other site 871585005796 active site 871585005797 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 871585005798 dimer interface [polypeptide binding]; other site 871585005799 FMN binding site [chemical binding]; other site 871585005800 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 871585005801 Protein export membrane protein; Region: SecD_SecF; cl14618 871585005802 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 871585005803 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 871585005804 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 871585005805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585005806 Helix-turn-helix domains; Region: HTH; cl00088 871585005807 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 871585005808 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585005809 Helix-turn-helix domains; Region: HTH; cl00088 871585005810 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 871585005811 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 871585005812 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 871585005813 NMT1-like family; Region: NMT1_2; cl15260 871585005814 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585005815 Helix-turn-helix domains; Region: HTH; cl00088 871585005816 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 871585005817 putative effector binding pocket; other site 871585005818 putative dimerization interface [polypeptide binding]; other site 871585005819 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 871585005820 short chain dehydrogenase; Provisional; Region: PRK06523 871585005821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585005822 NAD(P) binding site [chemical binding]; other site 871585005823 active site 871585005824 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 871585005825 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 871585005826 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 871585005827 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 871585005828 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 871585005829 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 871585005830 N-acetyl-D-glucosamine binding site [chemical binding]; other site 871585005831 catalytic residue [active] 871585005832 SCP-2 sterol transfer family; Region: SCP2; cl01225 871585005833 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 871585005834 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 871585005835 Ligand Binding Site [chemical binding]; other site 871585005836 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 871585005837 N-acetyl-D-glucosamine binding site [chemical binding]; other site 871585005838 catalytic residue [active] 871585005839 Peptidase family M48; Region: Peptidase_M48; cl12018 871585005840 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 871585005841 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 871585005842 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 871585005843 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 871585005844 putative active site [active] 871585005845 catalytic site [active] 871585005846 putative metal binding site [ion binding]; other site 871585005847 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585005848 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 871585005849 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 871585005850 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 871585005851 ring oligomerisation interface [polypeptide binding]; other site 871585005852 ATP/Mg binding site [chemical binding]; other site 871585005853 stacking interactions; other site 871585005854 hinge regions; other site 871585005855 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 871585005856 oligomerisation interface [polypeptide binding]; other site 871585005857 mobile loop; other site 871585005858 roof hairpin; other site 871585005859 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005860 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 871585005861 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005862 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 871585005863 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 871585005864 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 871585005865 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005866 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005867 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005868 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005869 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005870 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 871585005871 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 871585005872 putative active site [active] 871585005873 putative metal binding site [ion binding]; other site 871585005874 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 871585005875 active site 871585005876 metal binding site [ion binding]; metal-binding site 871585005877 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 871585005878 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 871585005879 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 871585005880 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 871585005881 active site 871585005882 substrate-binding site [chemical binding]; other site 871585005883 metal-binding site [ion binding] 871585005884 GTP binding site [chemical binding]; other site 871585005885 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 871585005886 glycerol kinase; Provisional; Region: glpK; PRK00047 871585005887 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 871585005888 N- and C-terminal domain interface [polypeptide binding]; other site 871585005889 active site 871585005890 MgATP binding site [chemical binding]; other site 871585005891 catalytic site [active] 871585005892 metal binding site [ion binding]; metal-binding site 871585005893 glycerol binding site [chemical binding]; other site 871585005894 homotetramer interface [polypeptide binding]; other site 871585005895 homodimer interface [polypeptide binding]; other site 871585005896 FBP binding site [chemical binding]; other site 871585005897 protein IIAGlc interface [polypeptide binding]; other site 871585005898 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 871585005899 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 871585005900 putative substrate translocation pore; other site 871585005901 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 871585005902 S-adenosylmethionine binding site [chemical binding]; other site 871585005903 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 871585005904 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 871585005905 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 871585005906 homodimer interface [polypeptide binding]; other site 871585005907 NADP binding site [chemical binding]; other site 871585005908 substrate binding site [chemical binding]; other site 871585005909 PhoD-like phosphatase; Region: PhoD; pfam09423 871585005910 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 871585005911 putative active site [active] 871585005912 putative metal binding site [ion binding]; other site 871585005913 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 871585005914 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 871585005915 dihydropteroate synthase; Region: DHPS; TIGR01496 871585005916 substrate binding pocket [chemical binding]; other site 871585005917 dimer interface [polypeptide binding]; other site 871585005918 inhibitor binding site; inhibition site 871585005919 FtsH Extracellular; Region: FtsH_ext; pfam06480 871585005920 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 871585005921 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 871585005922 Walker A motif; other site 871585005923 ATP binding site [chemical binding]; other site 871585005924 Walker B motif; other site 871585005925 arginine finger; other site 871585005926 Peptidase family M41; Region: Peptidase_M41; pfam01434 871585005927 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 871585005928 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 871585005929 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 871585005930 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 871585005931 putative heme binding site [chemical binding]; other site 871585005932 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 871585005933 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 871585005934 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 871585005935 catalytic site [active] 871585005936 subunit interface [polypeptide binding]; other site 871585005937 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 871585005938 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871585005939 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585005940 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 871585005941 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871585005942 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585005943 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 871585005944 IMP binding site; other site 871585005945 dimer interface [polypeptide binding]; other site 871585005946 interdomain contacts; other site 871585005947 partial ornithine binding site; other site 871585005948 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 871585005949 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 871585005950 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 871585005951 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585005952 Helix-turn-helix domains; Region: HTH; cl00088 871585005953 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 871585005954 homotrimer interaction site [polypeptide binding]; other site 871585005955 putative active site [active] 871585005956 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 871585005957 trimer interface [polypeptide binding]; other site 871585005958 active site 871585005959 substrate binding site [chemical binding]; other site 871585005960 CoA binding site [chemical binding]; other site 871585005961 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 871585005962 Ligand Binding Site [chemical binding]; other site 871585005963 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 871585005964 DNA binding site [nucleotide binding] 871585005965 active site 871585005966 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 871585005967 active site 871585005968 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 871585005969 putative active site [active] 871585005970 putative metal binding site [ion binding]; other site 871585005971 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 871585005972 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 871585005973 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005974 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 871585005975 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005976 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 871585005977 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 871585005978 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 871585005979 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 871585005980 Protein of unknown function (DUF808); Region: DUF808; cl01002 871585005981 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 871585005982 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 871585005983 active site 871585005984 HIGH motif; other site 871585005985 dimer interface [polypeptide binding]; other site 871585005986 KMSKS motif; other site 871585005987 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 871585005988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585005989 CoA-ligase; Region: Ligase_CoA; cl02894 871585005990 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 871585005991 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585005992 CoA-ligase; Region: Ligase_CoA; cl02894 871585005993 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 871585005994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585005995 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585005996 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 871585005997 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 871585005998 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 871585005999 E3 interaction surface; other site 871585006000 lipoyl attachment site [posttranslational modification]; other site 871585006001 e3 binding domain; Region: E3_binding; pfam02817 871585006002 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 871585006003 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 871585006004 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 871585006005 TPP-binding site [chemical binding]; other site 871585006006 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 871585006007 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 871585006008 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 871585006009 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 871585006010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585006011 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 871585006012 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 871585006013 SdhC subunit interface [polypeptide binding]; other site 871585006014 proximal heme binding site [chemical binding]; other site 871585006015 cardiolipin binding site; other site 871585006016 Iron-sulfur protein interface; other site 871585006017 proximal quinone binding site [chemical binding]; other site 871585006018 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 871585006019 Iron-sulfur protein interface; other site 871585006020 proximal quinone binding site [chemical binding]; other site 871585006021 SdhD (CybS) interface [polypeptide binding]; other site 871585006022 proximal heme binding site [chemical binding]; other site 871585006023 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 871585006024 dimer interface [polypeptide binding]; other site 871585006025 Citrate synthase; Region: Citrate_synt; pfam00285 871585006026 active site 871585006027 citrylCoA binding site [chemical binding]; other site 871585006028 NADH binding [chemical binding]; other site 871585006029 cationic pore residues; other site 871585006030 oxalacetate/citrate binding site [chemical binding]; other site 871585006031 coenzyme A binding site [chemical binding]; other site 871585006032 catalytic triad [active] 871585006033 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 871585006034 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 871585006035 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 871585006036 active site residue [active] 871585006037 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 871585006038 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 871585006039 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 871585006040 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 871585006041 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 871585006042 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871585006043 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 871585006044 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 871585006045 DNA binding residues [nucleotide binding] 871585006046 Protein of unknown function (DUF493); Region: DUF493; cl01102 871585006047 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 871585006048 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 871585006049 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 871585006050 putative active site [active] 871585006051 metal binding site [ion binding]; metal-binding site 871585006052 amino acid transporter; Region: 2A0306; TIGR00909 871585006053 Spore germination protein; Region: Spore_permease; cl15802 871585006054 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585006055 Helix-turn-helix domains; Region: HTH; cl00088 871585006056 JmjC domain, hydroxylase; Region: JmjC; cl15814 871585006057 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 871585006058 siroheme synthase; Provisional; Region: cysG; PRK10637 871585006059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585006060 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 871585006061 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 871585006062 seryl-tRNA synthetase; Provisional; Region: PRK05431 871585006063 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 871585006064 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 871585006065 dimer interface [polypeptide binding]; other site 871585006066 active site 871585006067 motif 1; other site 871585006068 motif 2; other site 871585006069 motif 3; other site 871585006070 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 871585006071 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 871585006072 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 871585006073 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 871585006074 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 871585006075 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 871585006076 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 871585006077 substrate binding pocket [chemical binding]; other site 871585006078 chain length determination region; other site 871585006079 substrate-Mg2+ binding site; other site 871585006080 catalytic residues [active] 871585006081 aspartate-rich region 1; other site 871585006082 active site lid residues [active] 871585006083 aspartate-rich region 2; other site 871585006084 Site-specific recombinase; Region: SpecificRecomb; cl15411 871585006085 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 871585006086 active site 871585006087 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 871585006088 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 871585006089 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 871585006090 potential frameshift: common BLAST hit: gi|215482463|ref|YP_002324649.1| AcrB protein 871585006091 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 871585006092 Protein export membrane protein; Region: SecD_SecF; cl14618 871585006093 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 871585006094 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 871585006095 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 871585006096 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 871585006097 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 871585006098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585006099 short chain dehydrogenase; Provisional; Region: PRK06181 871585006100 NAD(P) binding site [chemical binding]; other site 871585006101 active site 871585006102 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 871585006103 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 871585006104 HIGH motif; other site 871585006105 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 871585006106 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 871585006107 active site 871585006108 KMSKS motif; other site 871585006109 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 871585006110 tRNA binding surface [nucleotide binding]; other site 871585006111 anticodon binding site; other site 871585006112 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 871585006113 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 871585006114 Membrane transport protein; Region: Mem_trans; cl09117 871585006115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585006116 Helix-turn-helix domains; Region: HTH; cl00088 871585006117 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 871585006118 dimerization interface [polypeptide binding]; other site 871585006119 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 871585006120 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 871585006121 active site 871585006122 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 871585006123 dimer interface [polypeptide binding]; other site 871585006124 phosphorylation site [posttranslational modification] 871585006125 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 871585006126 ATP binding site [chemical binding]; other site 871585006127 Mg2+ binding site [ion binding]; other site 871585006128 G-X-G motif; other site 871585006129 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871585006130 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 871585006131 active site 871585006132 phosphorylation site [posttranslational modification] 871585006133 intermolecular recognition site; other site 871585006134 dimerization interface [polypeptide binding]; other site 871585006135 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 871585006136 DNA binding site [nucleotide binding] 871585006137 putative metal dependent hydrolase; Provisional; Region: PRK11598 871585006138 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 871585006139 Sulfatase; Region: Sulfatase; cl10460 871585006140 AmpG-related permease; Region: 2A0125; TIGR00901 871585006141 muropeptide transporter; Validated; Region: ampG; PRK11010 871585006142 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 871585006143 putative acyl-acceptor binding pocket; other site 871585006144 hypothetical protein; Provisional; Region: PRK10279 871585006145 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 871585006146 nucleophile elbow; other site 871585006147 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 871585006148 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 871585006149 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 871585006150 Protein of unknown function (DUF419); Region: DUF419; cl15265 871585006151 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 871585006152 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 871585006153 substrate binding pocket [chemical binding]; other site 871585006154 chain length determination region; other site 871585006155 substrate-Mg2+ binding site; other site 871585006156 catalytic residues [active] 871585006157 aspartate-rich region 1; other site 871585006158 active site lid residues [active] 871585006159 aspartate-rich region 2; other site 871585006160 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 871585006161 PrpF protein; Region: PrpF; pfam04303 871585006162 aromatic amino acid transporter; Provisional; Region: PRK10238 871585006163 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 871585006164 chaperone protein HchA; Provisional; Region: PRK04155 871585006165 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 871585006166 conserved cys residue [active] 871585006167 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 871585006168 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 871585006169 NAD(P) binding site [chemical binding]; other site 871585006170 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 871585006171 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585006172 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585006173 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585006174 Bacitracin resistance protein BacA; Region: BacA; cl00858 871585006175 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 871585006176 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 871585006177 putative di-iron ligands [ion binding]; other site 871585006178 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 871585006179 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585006180 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585006181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585006182 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585006183 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 871585006184 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 871585006185 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 871585006186 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 871585006187 Active Sites [active] 871585006188 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 871585006189 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 871585006190 ribonuclease G; Provisional; Region: PRK11712 871585006191 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 871585006192 homodimer interface [polypeptide binding]; other site 871585006193 oligonucleotide binding site [chemical binding]; other site 871585006194 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 871585006195 active site 871585006196 dimer interface [polypeptide binding]; other site 871585006197 rod shape-determining protein MreC; Provisional; Region: PRK13922 871585006198 rod shape-determining protein MreC; Region: MreC; pfam04085 871585006199 potential frameshift: common BLAST hit: gi|229577090|ref|YP_001085795.2| rod shape-determining protein MreB 871585006200 Cell division protein FtsA; Region: FtsA; cl11496 871585006201 rod shape-determining protein MreB; Provisional; Region: PRK13927 871585006202 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 871585006203 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 871585006204 Amidase; Region: Amidase; cl11426 871585006205 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 871585006206 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 871585006207 GatB domain; Region: GatB_Yqey; cl11497 871585006208 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 871585006209 intracellular protease, PfpI family; Region: PfpI; TIGR01382 871585006210 conserved cys residue [active] 871585006211 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 871585006212 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 871585006213 threonine dehydratase; Provisional; Region: PRK07334 871585006214 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 871585006215 tetramer interface [polypeptide binding]; other site 871585006216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585006217 catalytic residue [active] 871585006218 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 871585006219 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 871585006220 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 871585006221 active site 871585006222 nucleophile elbow; other site 871585006223 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 871585006224 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 871585006225 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 871585006226 putative FMN binding site [chemical binding]; other site 871585006227 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 871585006228 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 871585006229 putative substrate translocation pore; other site 871585006230 hypothetical membrane protein, TIGR01666; Region: YCCS 871585006231 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 871585006232 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 871585006233 YcxB-like protein; Region: YcxB; pfam14317 871585006234 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 871585006235 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 871585006236 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 871585006237 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 871585006238 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585006239 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 871585006240 FAD binding pocket [chemical binding]; other site 871585006241 FAD binding motif [chemical binding]; other site 871585006242 catalytic residues [active] 871585006243 NAD binding pocket [chemical binding]; other site 871585006244 phosphate binding motif [ion binding]; other site 871585006245 beta-alpha-beta structure motif; other site 871585006246 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 871585006247 putative active site [active] 871585006248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 871585006249 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 871585006250 Protein of unknown function (DUF454); Region: DUF454; cl01063 871585006251 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 871585006252 Entericidin EcnA/B family; Region: Entericidin; cl02322 871585006253 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 871585006254 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 871585006255 metal binding site [ion binding]; metal-binding site 871585006256 dimer interface [polypeptide binding]; other site 871585006257 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 871585006258 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585006259 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 871585006260 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 871585006261 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 871585006262 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 871585006263 putative binding surface; other site 871585006264 active site 871585006265 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 871585006266 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 871585006267 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 871585006268 ATP binding site [chemical binding]; other site 871585006269 Mg2+ binding site [ion binding]; other site 871585006270 G-X-G motif; other site 871585006271 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 871585006272 Response regulator receiver domain; Region: Response_reg; pfam00072 871585006273 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 871585006274 active site 871585006275 phosphorylation site [posttranslational modification] 871585006276 intermolecular recognition site; other site 871585006277 dimerization interface [polypeptide binding]; other site 871585006278 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 871585006279 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 871585006280 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871585006281 dimer interface [polypeptide binding]; other site 871585006282 putative CheW interface [polypeptide binding]; other site 871585006283 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 871585006284 Response regulator receiver domain; Region: Response_reg; pfam00072 871585006285 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 871585006286 active site 871585006287 phosphorylation site [posttranslational modification] 871585006288 intermolecular recognition site; other site 871585006289 dimerization interface [polypeptide binding]; other site 871585006290 Response regulator receiver domain; Region: Response_reg; pfam00072 871585006291 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 871585006292 active site 871585006293 phosphorylation site [posttranslational modification] 871585006294 intermolecular recognition site; other site 871585006295 dimerization interface [polypeptide binding]; other site 871585006296 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 871585006297 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 871585006298 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 871585006299 prolyl-tRNA synthetase; Provisional; Region: PRK09194 871585006300 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 871585006301 dimer interface [polypeptide binding]; other site 871585006302 motif 1; other site 871585006303 active site 871585006304 motif 2; other site 871585006305 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 871585006306 putative deacylase active site [active] 871585006307 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 871585006308 active site 871585006309 motif 3; other site 871585006310 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 871585006311 anticodon binding site; other site 871585006312 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 871585006313 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 871585006314 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 871585006315 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 871585006316 PhnA protein; Region: PhnA; pfam03831 871585006317 Protein of unknown function, DUF488; Region: DUF488; cl01246 871585006318 pyrimidine utilization protein D; Region: RutD; TIGR03611 871585006319 Nitroreductase-like family 5. 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_5; cd02148 871585006320 putative FMN binding site [chemical binding]; other site 871585006321 pyrimidine utilization protein A; Region: RutA; TIGR03612 871585006322 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 871585006323 active site 871585006324 dimer interface [polypeptide binding]; other site 871585006325 non-prolyl cis peptide bond; other site 871585006326 insertion regions; other site 871585006327 Isochorismatase family; Region: Isochorismatase; pfam00857 871585006328 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 871585006329 catalytic triad [active] 871585006330 conserved cis-peptide bond; other site 871585006331 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 871585006332 homotrimer interaction site [polypeptide binding]; other site 871585006333 putative active site [active] 871585006334 Flavin Reductases; Region: FlaRed; cl00801 871585006335 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 871585006336 uracil-xanthine permease; Region: ncs2; TIGR00801 871585006337 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 871585006338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585006339 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 871585006340 putative hydrophobic ligand binding site [chemical binding]; other site 871585006341 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 871585006342 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 871585006343 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 871585006344 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 871585006345 dimerization domain [polypeptide binding]; other site 871585006346 dimer interface [polypeptide binding]; other site 871585006347 catalytic residues [active] 871585006348 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 871585006349 Sel1 repeat; Region: Sel1; cl02723 871585006350 Membrane transport protein; Region: Mem_trans; cl09117 871585006351 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 871585006352 active site 871585006353 FMN binding site [chemical binding]; other site 871585006354 substrate binding site [chemical binding]; other site 871585006355 homotetramer interface [polypeptide binding]; other site 871585006356 catalytic residue [active] 871585006357 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 871585006358 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 871585006359 N-terminal plug; other site 871585006360 ligand-binding site [chemical binding]; other site 871585006361 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 871585006362 active site 871585006363 DNA binding site [nucleotide binding] 871585006364 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 871585006365 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 871585006366 DNA binding site [nucleotide binding] 871585006367 catalytic residue [active] 871585006368 H2TH interface [polypeptide binding]; other site 871585006369 putative catalytic residues [active] 871585006370 turnover-facilitating residue; other site 871585006371 intercalation triad [nucleotide binding]; other site 871585006372 8OG recognition residue [nucleotide binding]; other site 871585006373 putative reading head residues; other site 871585006374 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 871585006375 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 871585006376 PPIC-type PPIASE domain; Region: Rotamase; cl08278 871585006377 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 871585006378 trimer interface; other site 871585006379 sugar binding site [chemical binding]; other site 871585006380 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 871585006381 putative active site pocket [active] 871585006382 dimerization interface [polypeptide binding]; other site 871585006383 putative catalytic residue [active] 871585006384 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 871585006385 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 871585006386 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 871585006387 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 871585006388 G1 box; other site 871585006389 putative GEF interaction site [polypeptide binding]; other site 871585006390 GTP/Mg2+ binding site [chemical binding]; other site 871585006391 Switch I region; other site 871585006392 G2 box; other site 871585006393 G3 box; other site 871585006394 Switch II region; other site 871585006395 G4 box; other site 871585006396 G5 box; other site 871585006397 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 871585006398 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 871585006399 xanthine permease; Region: pbuX; TIGR03173 871585006400 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 871585006401 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 871585006402 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 871585006403 S-adenosylmethionine binding site [chemical binding]; other site 871585006404 lysine transporter; Provisional; Region: PRK10836 871585006405 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 871585006406 hypothetical protein; Reviewed; Region: PRK09588 871585006407 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 871585006408 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 871585006409 ligand binding site [chemical binding]; other site 871585006410 Type II transport protein GspH; Region: GspH; pfam12019 871585006411 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 871585006412 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 871585006413 dimer interface [polypeptide binding]; other site 871585006414 active site 871585006415 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 871585006416 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 871585006417 dimer interface [polypeptide binding]; other site 871585006418 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 871585006419 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 871585006420 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 871585006421 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 871585006422 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 871585006423 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 871585006424 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 871585006425 Trp docking motif [polypeptide binding]; other site 871585006426 putative active site [active] 871585006427 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 871585006428 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 871585006429 CoA-transferase family III; Region: CoA_transf_3; pfam02515 871585006430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585006431 formyl-coenzyme A transferase; Provisional; Region: PRK05398 871585006432 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585006433 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585006434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585006435 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 871585006436 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 871585006437 dimer interface [polypeptide binding]; other site 871585006438 active site 871585006439 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 871585006440 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 871585006441 trimer interface [polypeptide binding]; other site 871585006442 oxyanion hole (OAH) forming residues; other site 871585006443 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK09260 871585006444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585006445 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871585006446 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 871585006447 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 871585006448 active site 871585006449 nucleophile elbow; other site 871585006450 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585006451 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585006452 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 871585006453 Methyltransferase domain; Region: Methyltransf_31; pfam13847 871585006454 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 871585006455 S-adenosylmethionine binding site [chemical binding]; other site 871585006456 Haemolysin-III related; Region: HlyIII; cl03831 871585006457 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 871585006458 metabolite-proton symporter; Region: 2A0106; TIGR00883 871585006459 putative substrate translocation pore; other site 871585006460 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 871585006461 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 871585006462 SEC-C motif; Region: SEC-C; pfam02810 871585006463 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 871585006464 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 871585006465 dimer interface [polypeptide binding]; other site 871585006466 decamer (pentamer of dimers) interface [polypeptide binding]; other site 871585006467 catalytic triad [active] 871585006468 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585006469 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 871585006470 active site 871585006471 catalytic residues [active] 871585006472 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 871585006473 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871585006474 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871585006475 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 871585006476 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 871585006477 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 871585006478 substrate binding site [chemical binding]; other site 871585006479 active site 871585006480 catalytic residues [active] 871585006481 heterodimer interface [polypeptide binding]; other site 871585006482 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585006483 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585006484 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585006485 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 871585006486 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 871585006487 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 871585006488 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 871585006489 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 871585006490 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 871585006491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585006492 catalytic residue [active] 871585006493 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 871585006494 active site 871585006495 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 871585006496 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 871585006497 N-terminal plug; other site 871585006498 ligand-binding site [chemical binding]; other site 871585006499 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 871585006500 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 871585006501 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 871585006502 active site 871585006503 catalytic site [active] 871585006504 metal binding site [ion binding]; metal-binding site 871585006505 META domain; Region: META; cl01245 871585006506 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 871585006507 Di-iron ligands [ion binding]; other site 871585006508 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 871585006509 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 871585006510 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 871585006511 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 871585006512 active site 871585006513 phosphorylation site [posttranslational modification] 871585006514 intermolecular recognition site; other site 871585006515 dimerization interface [polypeptide binding]; other site 871585006516 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 871585006517 DNA binding site [nucleotide binding] 871585006518 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 871585006519 dimerization interface [polypeptide binding]; other site 871585006520 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 871585006521 dimer interface [polypeptide binding]; other site 871585006522 phosphorylation site [posttranslational modification] 871585006523 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 871585006524 ATP binding site [chemical binding]; other site 871585006525 Mg2+ binding site [ion binding]; other site 871585006526 G-X-G motif; other site 871585006527 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 871585006528 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 871585006529 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585006530 active site 871585006531 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 871585006532 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 871585006533 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 871585006534 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585006535 active site 871585006536 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 871585006537 LysR family transcriptional regulator; Provisional; Region: PRK14997 871585006538 Helix-turn-helix domains; Region: HTH; cl00088 871585006539 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 871585006540 putative effector binding pocket; other site 871585006541 dimerization interface [polypeptide binding]; other site 871585006542 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 871585006543 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 871585006544 N-terminal domain interface [polypeptide binding]; other site 871585006545 dimer interface [polypeptide binding]; other site 871585006546 substrate binding pocket (H-site) [chemical binding]; other site 871585006547 Phosphate-starvation-inducible E; Region: PsiE; cl01264 871585006548 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 871585006549 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 871585006550 putative active site [active] 871585006551 putative catalytic site [active] 871585006552 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 871585006553 PLD-like domain; Region: PLDc_2; pfam13091 871585006554 putative active site [active] 871585006555 putative catalytic site [active] 871585006556 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 871585006557 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 871585006558 N-terminal plug; other site 871585006559 ligand-binding site [chemical binding]; other site 871585006560 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 871585006561 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 871585006562 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 871585006563 dimer interface [polypeptide binding]; other site 871585006564 anticodon binding site; other site 871585006565 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 871585006566 homodimer interface [polypeptide binding]; other site 871585006567 motif 1; other site 871585006568 active site 871585006569 motif 2; other site 871585006570 GAD domain; Region: GAD; pfam02938 871585006571 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 871585006572 active site 871585006573 motif 3; other site 871585006574 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 871585006575 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 871585006576 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 871585006577 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 871585006578 putative ADP-binding pocket [chemical binding]; other site 871585006579 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 871585006580 putative metal binding site; other site 871585006581 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 871585006582 putative active site [active] 871585006583 putative metal binding site [ion binding]; other site 871585006584 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 871585006585 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 871585006586 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 871585006587 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 871585006588 homodimer interface [polypeptide binding]; other site 871585006589 substrate-cofactor binding pocket; other site 871585006590 catalytic residue [active] 871585006591 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 871585006592 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 871585006593 metal binding triad; other site 871585006594 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 871585006595 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 871585006596 metal binding triad; other site 871585006597 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 871585006598 dimer interface [polypeptide binding]; other site 871585006599 phosphorylation site [posttranslational modification] 871585006600 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 871585006601 ATP binding site [chemical binding]; other site 871585006602 Mg2+ binding site [ion binding]; other site 871585006603 G-X-G motif; other site 871585006604 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 871585006605 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 871585006606 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 871585006607 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 871585006608 Preprotein translocase subunit; Region: YajC; cl00806 871585006609 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 871585006610 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 871585006611 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 871585006612 Protein export membrane protein; Region: SecD_SecF; cl14618 871585006613 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 871585006614 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 871585006615 Protein export membrane protein; Region: SecD_SecF; cl14618 871585006616 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 871585006617 Flavoprotein; Region: Flavoprotein; cl08021 871585006618 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 871585006619 hypothetical protein; Reviewed; Region: PRK00024 871585006620 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 871585006621 MPN+ (JAMM) motif; other site 871585006622 Zinc-binding site [ion binding]; other site 871585006623 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 871585006624 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 871585006625 Domain of unknown function (DUF365); Region: DUF365; cl00889 871585006626 Intracellular septation protein A; Region: IspA; cl01098 871585006627 YCII-related domain; Region: YCII; cl00999 871585006628 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 871585006629 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 871585006630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585006631 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 871585006632 active site residue [active] 871585006633 Protein of unknown function (DUF520); Region: DUF520; cl00723 871585006634 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 871585006635 CoenzymeA binding site [chemical binding]; other site 871585006636 subunit interaction site [polypeptide binding]; other site 871585006637 PHB binding site; other site 871585006638 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 871585006639 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 871585006640 thioredoxin 2; Provisional; Region: PRK10996 871585006641 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 871585006642 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 871585006643 catalytic residues [active] 871585006644 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 871585006645 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585006646 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 871585006647 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 871585006648 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585006649 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 871585006650 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 871585006651 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 871585006652 substrate binding site [chemical binding]; other site 871585006653 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 871585006654 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 871585006655 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 871585006656 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585006657 transcriptional regulator; Provisional; Region: PRK10632 871585006658 Helix-turn-helix domains; Region: HTH; cl00088 871585006659 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 871585006660 putative effector binding pocket; other site 871585006661 dimerization interface [polypeptide binding]; other site 871585006662 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 871585006663 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 871585006664 dimer interface [polypeptide binding]; other site 871585006665 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 871585006666 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 871585006667 potential frameshift: common BLAST hit: gi|299772102|ref|YP_003734128.1| Matrixin family protein 871585006668 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 871585006669 active site 871585006670 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 871585006671 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 871585006672 active site 871585006673 active site 871585006674 Transglycosylase SLT domain; Region: SLT_2; pfam13406 871585006675 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 871585006676 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 871585006677 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 871585006678 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585006679 AIR carboxylase; Region: AIRC; cl00310 871585006680 Protein of unknown function, DUF486; Region: DUF486; cl01236 871585006681 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 871585006682 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 871585006683 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871585006684 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871585006685 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 871585006686 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 871585006687 active site 871585006688 Integral membrane protein TerC family; Region: TerC; cl10468 871585006689 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 871585006690 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 871585006691 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 871585006692 [2Fe-2S] cluster binding site [ion binding]; other site 871585006693 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 871585006694 hydrophobic ligand binding site; other site 871585006695 guanine deaminase; Provisional; Region: PRK09228 871585006696 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 871585006697 active site 871585006698 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871585006699 active site 871585006700 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 871585006701 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 871585006702 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 871585006703 dimerization domain [polypeptide binding]; other site 871585006704 dimer interface [polypeptide binding]; other site 871585006705 catalytic residues [active] 871585006706 Cation efflux family; Region: Cation_efflux; cl00316 871585006707 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 871585006708 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 871585006709 putative metal binding site [ion binding]; other site 871585006710 putative homodimer interface [polypeptide binding]; other site 871585006711 putative homotetramer interface [polypeptide binding]; other site 871585006712 putative homodimer-homodimer interface [polypeptide binding]; other site 871585006713 putative allosteric switch controlling residues; other site 871585006714 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 871585006715 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 871585006716 trmE is a tRNA modification GTPase; Region: trmE; cd04164 871585006717 G1 box; other site 871585006718 GTP/Mg2+ binding site [chemical binding]; other site 871585006719 Switch I region; other site 871585006720 G2 box; other site 871585006721 Switch II region; other site 871585006722 G3 box; other site 871585006723 G4 box; other site 871585006724 G5 box; other site 871585006725 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 871585006726 membrane protein insertase; Provisional; Region: PRK01318 871585006727 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 871585006728 Ribonuclease P; Region: Ribonuclease_P; cl00457 871585006729 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 871585006730 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 871585006731 DnaA N-terminal domain; Region: DnaA_N; pfam11638 871585006732 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 871585006733 Walker A motif; other site 871585006734 ATP binding site [chemical binding]; other site 871585006735 Walker B motif; other site 871585006736 arginine finger; other site 871585006737 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 871585006738 DnaA box-binding interface [nucleotide binding]; other site 871585006739 potential frameshift: common BLAST hit: gi|299768252|ref|YP_003730278.1| DNA polymerase III, beta subunit 871585006740 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; cl02940 871585006741 putative DNA binding surface [nucleotide binding]; other site 871585006742 dimer interface [polypeptide binding]; other site 871585006743 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 871585006744 beta-clamp/clamp loader binding surface; other site 871585006745 beta-clamp/translesion DNA polymerase binding surface; other site 871585006746 recombination protein F; Reviewed; Region: recF; PRK00064 871585006747 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585006748 Walker A/P-loop; other site 871585006749 ATP binding site [chemical binding]; other site 871585006750 Q-loop/lid; other site 871585006751 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585006752 ABC transporter signature motif; other site 871585006753 Walker B; other site 871585006754 D-loop; other site 871585006755 H-loop/switch region; other site 871585006756 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 871585006757 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 871585006758 Mg2+ binding site [ion binding]; other site 871585006759 G-X-G motif; other site 871585006760 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 871585006761 anchoring element; other site 871585006762 dimer interface [polypeptide binding]; other site 871585006763 ATP binding site [chemical binding]; other site 871585006764 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 871585006765 active site 871585006766 putative metal-binding site [ion binding]; other site 871585006767 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 871585006768 Cytochrome b562; Region: Cytochrom_B562; cl01546 871585006769 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 871585006770 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 871585006771 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 871585006772 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 871585006773 ABC transporter; Region: ABC_tran_2; pfam12848 871585006774 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 871585006775 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 871585006776 potential frameshift: common BLAST hit: gi|213155376|ref|YP_002317421.1| RND type efflux pump 871585006777 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 871585006778 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 871585006779 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 871585006780 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585006781 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 871585006782 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 871585006783 active site 871585006784 HIGH motif; other site 871585006785 dimer interface [polypeptide binding]; other site 871585006786 KMSKS motif; other site 871585006787 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 871585006788 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 871585006789 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871585006790 metal binding site [ion binding]; metal-binding site 871585006791 active site 871585006792 I-site; other site 871585006793 putative outer membrane lipoprotein; Provisional; Region: PRK09967 871585006794 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 871585006795 ligand binding site [chemical binding]; other site 871585006796 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 871585006797 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 871585006798 putative active site [active] 871585006799 putative metal binding site [ion binding]; other site 871585006800 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 871585006801 putative active site [active] 871585006802 catalytic site [active] 871585006803 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 871585006804 PLD-like domain; Region: PLDc_2; pfam13091 871585006805 putative active site [active] 871585006806 catalytic site [active] 871585006807 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 871585006808 putative acyl-acceptor binding pocket; other site 871585006809 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 871585006810 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 871585006811 HflX GTPase family; Region: HflX; cd01878 871585006812 G1 box; other site 871585006813 GTP/Mg2+ binding site [chemical binding]; other site 871585006814 Switch I region; other site 871585006815 G2 box; other site 871585006816 G3 box; other site 871585006817 Switch II region; other site 871585006818 G4 box; other site 871585006819 G5 box; other site 871585006820 LrgB-like family; Region: LrgB; cl00596 871585006821 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 871585006822 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 871585006823 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 871585006824 active site 871585006825 metal binding site [ion binding]; metal-binding site 871585006826 potential frameshift: common BLAST hit: gi|213157955|ref|YP_002320753.1| dimethyladenosine transferase 871585006827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585006828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585006829 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 871585006830 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 871585006831 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 871585006832 23S rRNA interface [nucleotide binding]; other site 871585006833 L3 interface [polypeptide binding]; other site 871585006834 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 871585006835 stringent starvation protein A; Provisional; Region: sspA; PRK09481 871585006836 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 871585006837 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 871585006838 dimer interface [polypeptide binding]; other site 871585006839 N-terminal domain interface [polypeptide binding]; other site 871585006840 Stringent starvation protein B; Region: SspB; cl01120 871585006841 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 871585006842 G1 box; other site 871585006843 GTP/Mg2+ binding site [chemical binding]; other site 871585006844 G2 box; other site 871585006845 Switch I region; other site 871585006846 G3 box; other site 871585006847 Switch II region; other site 871585006848 G4 box; other site 871585006849 G5 box; other site 871585006850 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 871585006851 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 871585006852 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871585006853 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585006854 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 871585006855 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 871585006856 carboxyltransferase (CT) interaction site; other site 871585006857 biotinylation site [posttranslational modification]; other site 871585006858 enoyl-CoA hydratase; Provisional; Region: PRK05995 871585006859 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 871585006860 substrate binding site [chemical binding]; other site 871585006861 oxyanion hole (OAH) forming residues; other site 871585006862 trimer interface [polypeptide binding]; other site 871585006863 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585006864 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585006865 active site 871585006866 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 871585006867 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 871585006868 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 871585006869 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 871585006870 NAD(P) binding site [chemical binding]; other site 871585006871 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 871585006872 substrate binding site [chemical binding]; other site 871585006873 homotetramer interface [polypeptide binding]; other site 871585006874 active site 871585006875 homodimer interface [polypeptide binding]; other site 871585006876 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 871585006877 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585006878 Helix-turn-helix domains; Region: HTH; cl00088 871585006879 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585006880 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585006881 active site 871585006882 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 871585006883 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 871585006884 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 871585006885 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 871585006886 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 871585006887 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 871585006888 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 871585006889 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 871585006890 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 871585006891 malate dehydrogenase; Provisional; Region: PRK05442 871585006892 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 871585006893 NAD(P) binding site [chemical binding]; other site 871585006894 dimer interface [polypeptide binding]; other site 871585006895 malate binding site [chemical binding]; other site 871585006896 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 871585006897 B1 nucleotide binding pocket [chemical binding]; other site 871585006898 B2 nucleotide binding pocket [chemical binding]; other site 871585006899 CAS motifs; other site 871585006900 active site 871585006901 lytic murein transglycosylase; Provisional; Region: PRK11619 871585006902 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 871585006903 N-acetyl-D-glucosamine binding site [chemical binding]; other site 871585006904 catalytic residue [active] 871585006905 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 871585006906 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 871585006907 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 871585006908 FeS/SAM binding site; other site 871585006909 TRAM domain; Region: TRAM; cl01282 871585006910 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 871585006911 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585006912 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 871585006913 Gram-negative bacterial tonB protein; Region: TonB; cl10048 871585006914 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 871585006915 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 871585006916 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871585006917 active site 871585006918 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585006919 potential frameshift: common BLAST hit: gi|299768710|ref|YP_003730736.1| tRNA-processing ribonuclease BN(RNase BN) 871585006920 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 871585006921 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 871585006922 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 871585006923 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 871585006924 YcxB-like protein; Region: YcxB; pfam14317 871585006925 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 871585006926 dimer interface [polypeptide binding]; other site 871585006927 FMN binding site [chemical binding]; other site 871585006928 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 871585006929 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 871585006930 ribonuclease R; Region: RNase_R; TIGR02063 871585006931 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 871585006932 RNB domain; Region: RNB; pfam00773 871585006933 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 871585006934 RNA binding site [nucleotide binding]; other site 871585006935 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 871585006936 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 871585006937 active site 871585006938 Zn binding site [ion binding]; other site 871585006939 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 871585006940 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 871585006941 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 871585006942 Rhomboid family; Region: Rhomboid; cl11446 871585006943 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 871585006944 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585006945 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585006946 active site 871585006947 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 871585006948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585006949 NAD(P) binding pocket [chemical binding]; other site 871585006950 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 871585006951 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 871585006952 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 871585006953 alphaNTD homodimer interface [polypeptide binding]; other site 871585006954 alphaNTD - beta interaction site [polypeptide binding]; other site 871585006955 alphaNTD - beta' interaction site [polypeptide binding]; other site 871585006956 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 871585006957 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 871585006958 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 871585006959 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 871585006960 RNA binding surface [nucleotide binding]; other site 871585006961 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 871585006962 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 871585006963 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 871585006964 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 871585006965 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 871585006966 SecY translocase; Region: SecY; pfam00344 871585006967 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 871585006968 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 871585006969 23S rRNA binding site [nucleotide binding]; other site 871585006970 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 871585006971 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 871585006972 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 871585006973 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 871585006974 5S rRNA interface [nucleotide binding]; other site 871585006975 23S rRNA interface [nucleotide binding]; other site 871585006976 L5 interface [polypeptide binding]; other site 871585006977 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 871585006978 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 871585006979 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 871585006980 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 871585006981 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 871585006982 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 871585006983 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 871585006984 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 871585006985 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 871585006986 KOW motif; Region: KOW; cl00354 871585006987 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 871585006988 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 871585006989 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 871585006990 23S rRNA interface [nucleotide binding]; other site 871585006991 putative translocon interaction site; other site 871585006992 signal recognition particle (SRP54) interaction site; other site 871585006993 L23 interface [polypeptide binding]; other site 871585006994 trigger factor interaction site; other site 871585006995 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 871585006996 23S rRNA interface [nucleotide binding]; other site 871585006997 5S rRNA interface [nucleotide binding]; other site 871585006998 putative antibiotic binding site [chemical binding]; other site 871585006999 L25 interface [polypeptide binding]; other site 871585007000 L27 interface [polypeptide binding]; other site 871585007001 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 871585007002 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 871585007003 G-X-X-G motif; other site 871585007004 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 871585007005 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 871585007006 putative translocon binding site; other site 871585007007 protein-rRNA interface [nucleotide binding]; other site 871585007008 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 871585007009 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 871585007010 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 871585007011 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 871585007012 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 871585007013 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 871585007014 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 871585007015 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 871585007016 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 871585007017 catalytic triad [active] 871585007018 cystathionine beta-lyase; Provisional; Region: PRK07050 871585007019 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 871585007020 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871585007021 catalytic residue [active] 871585007022 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 871585007023 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 871585007024 Walker A motif; other site 871585007025 ATP binding site [chemical binding]; other site 871585007026 Walker B motif; other site 871585007027 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 871585007028 heme-binding site [chemical binding]; other site 871585007029 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 871585007030 FAD binding pocket [chemical binding]; other site 871585007031 conserved FAD binding motif [chemical binding]; other site 871585007032 phosphate binding motif [ion binding]; other site 871585007033 Helix-turn-helix domains; Region: HTH; cl00088 871585007034 Rrf2 family protein; Region: rrf2_super; TIGR00738 871585007035 Predicted GTPase [General function prediction only]; Region: COG0218 871585007036 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 871585007037 G1 box; other site 871585007038 GTP/Mg2+ binding site [chemical binding]; other site 871585007039 Switch I region; other site 871585007040 G2 box; other site 871585007041 G3 box; other site 871585007042 Switch II region; other site 871585007043 G4 box; other site 871585007044 G5 box; other site 871585007045 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 871585007046 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 871585007047 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 871585007048 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 871585007049 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 871585007050 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 871585007051 active site 871585007052 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 871585007053 catalytic triad [active] 871585007054 dimer interface [polypeptide binding]; other site 871585007055 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 871585007056 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 871585007057 putative acyl-acceptor binding pocket; other site 871585007058 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; cl15306 871585007059 membrane-bound complex binding site; other site 871585007060 hinge residues; other site 871585007061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585007062 NADH(P)-binding; Region: NAD_binding_10; pfam13460 871585007063 NAD(P) binding site [chemical binding]; other site 871585007064 active site 871585007065 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 871585007066 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 871585007067 ssDNA binding site; other site 871585007068 generic binding surface II; other site 871585007069 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 871585007070 ATP binding site [chemical binding]; other site 871585007071 putative Mg++ binding site [ion binding]; other site 871585007072 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 871585007073 nucleotide binding region [chemical binding]; other site 871585007074 ATP-binding site [chemical binding]; other site 871585007075 comF family protein; Region: comF; TIGR00201 871585007076 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871585007077 active site 871585007078 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 871585007079 nudix motif; other site 871585007080 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 871585007081 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 871585007082 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 871585007083 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 871585007084 anti sigma factor interaction site; other site 871585007085 regulatory phosphorylation site [posttranslational modification]; other site 871585007086 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 871585007087 mce related protein; Region: MCE; pfam02470 871585007088 Permease; Region: Permease; cl00510 871585007089 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 871585007090 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 871585007091 Walker A/P-loop; other site 871585007092 ATP binding site [chemical binding]; other site 871585007093 Q-loop/lid; other site 871585007094 ABC transporter signature motif; other site 871585007095 Walker B; other site 871585007096 D-loop; other site 871585007097 H-loop/switch region; other site 871585007098 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 871585007099 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 871585007100 ATP binding site [chemical binding]; other site 871585007101 Mg++ binding site [ion binding]; other site 871585007102 motif III; other site 871585007103 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 871585007104 nucleotide binding region [chemical binding]; other site 871585007105 ATP-binding site [chemical binding]; other site 871585007106 transcription termination factor Rho; Provisional; Region: PRK12678 871585007107 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 871585007108 active site 871585007109 dimerization interface [polypeptide binding]; other site 871585007110 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 871585007111 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 871585007112 TPP-binding site; other site 871585007113 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 871585007114 PYR/PP interface [polypeptide binding]; other site 871585007115 dimer interface [polypeptide binding]; other site 871585007116 TPP binding site [chemical binding]; other site 871585007117 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 871585007118 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 871585007119 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 871585007120 dimerization interface [polypeptide binding]; other site 871585007121 active site 871585007122 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 871585007123 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 871585007124 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 871585007125 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 871585007126 shikimate binding site; other site 871585007127 NAD(P) binding site [chemical binding]; other site 871585007128 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 871585007129 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 871585007130 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585007131 active site 871585007132 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 871585007133 PspC domain; Region: PspC; cl00864 871585007134 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 871585007135 HPP family; Region: HPP; pfam04982 871585007136 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 871585007137 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 871585007138 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 871585007139 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 871585007140 FeS/SAM binding site; other site 871585007141 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 871585007142 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 871585007143 dimer interface [polypeptide binding]; other site 871585007144 motif 1; other site 871585007145 active site 871585007146 motif 2; other site 871585007147 motif 3; other site 871585007148 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 871585007149 EamA-like transporter family; Region: EamA; cl01037 871585007150 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585007151 EamA-like transporter family; Region: EamA; cl01037 871585007152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585007153 Helix-turn-helix domains; Region: HTH; cl00088 871585007154 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 871585007155 dimerization interface [polypeptide binding]; other site 871585007156 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 871585007157 aspartate racemase; Region: asp_race; TIGR00035 871585007158 cell density-dependent motility repressor; Provisional; Region: PRK10082 871585007159 Helix-turn-helix domains; Region: HTH; cl00088 871585007160 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 871585007161 dimerization interface [polypeptide binding]; other site 871585007162 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 871585007163 active site 871585007164 catalytic residues [active] 871585007165 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 871585007166 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 871585007167 putative active site [active] 871585007168 Zn binding site [ion binding]; other site 871585007169 Succinylarginine dihydrolase; Region: AstB; cl01511 871585007170 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585007171 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 871585007172 NAD(P) binding site [chemical binding]; other site 871585007173 catalytic residues [active] 871585007174 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 871585007175 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 871585007176 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 871585007177 inhibitor-cofactor binding pocket; inhibition site 871585007178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585007179 catalytic residue [active] 871585007180 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 871585007181 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 871585007182 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 871585007183 NAD(P) binding site [chemical binding]; other site 871585007184 S-methylmethionine transporter; Provisional; Region: PRK11387 871585007185 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 871585007186 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 871585007187 S-adenosylmethionine binding site [chemical binding]; other site 871585007188 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; cl01958 871585007189 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 871585007190 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 871585007191 P-loop; other site 871585007192 Magnesium ion binding site [ion binding]; other site 871585007193 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 871585007194 Domain of unknown function DUF20; Region: UPF0118; pfam01594 871585007195 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 871585007196 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 871585007197 E-class dimer interface [polypeptide binding]; other site 871585007198 P-class dimer interface [polypeptide binding]; other site 871585007199 active site 871585007200 Cu2+ binding site [ion binding]; other site 871585007201 Zn2+ binding site [ion binding]; other site 871585007202 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 871585007203 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 871585007204 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 871585007205 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 871585007206 putative substrate translocation pore; other site 871585007207 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585007208 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 871585007209 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 871585007210 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 871585007211 FAD binding domain; Region: FAD_binding_4; pfam01565 871585007212 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 871585007213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585007214 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 871585007215 L-serine binding site [chemical binding]; other site 871585007216 ACT domain interface; other site 871585007217 threonine and homoserine efflux system; Provisional; Region: PRK10532 871585007218 EamA-like transporter family; Region: EamA; cl01037 871585007219 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 871585007220 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 871585007221 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 871585007222 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 871585007223 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 871585007224 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 871585007225 RNA binding site [nucleotide binding]; other site 871585007226 active site 871585007227 lipase chaperone; Provisional; Region: PRK01294 871585007228 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 871585007229 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 871585007230 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 871585007231 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 871585007232 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 871585007233 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 871585007234 RimM N-terminal domain; Region: RimM; pfam01782 871585007235 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 871585007236 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 871585007237 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 871585007238 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 871585007239 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 871585007240 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 871585007241 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 871585007242 LytB protein; Region: LYTB; cl00507 871585007243 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 871585007244 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 871585007245 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 871585007246 catalytic site [active] 871585007247 G-X2-G-X-G-K; other site 871585007248 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 871585007249 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 871585007250 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 871585007251 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 871585007252 synthetase active site [active] 871585007253 NTP binding site [chemical binding]; other site 871585007254 metal binding site [ion binding]; metal-binding site 871585007255 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 871585007256 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585007257 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 871585007258 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 871585007259 homotrimer interaction site [polypeptide binding]; other site 871585007260 putative active site [active] 871585007261 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 871585007262 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 871585007263 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 871585007264 heme binding site [chemical binding]; other site 871585007265 ferroxidase pore; other site 871585007266 ferroxidase diiron center [ion binding]; other site 871585007267 O-Antigen ligase; Region: Wzy_C; cl04850 871585007268 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 871585007269 O-Antigen ligase; Region: Wzy_C; cl04850 871585007270 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 871585007271 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 871585007272 Pilin (bacterial filament); Region: Pilin; pfam00114 871585007273 Repair protein; Region: Repair_PSII; cl01535 871585007274 Repair protein; Region: Repair_PSII; cl01535 871585007275 LemA family; Region: LemA; cl00742 871585007276 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 871585007277 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 871585007278 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 871585007279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585007280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871585007281 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 871585007282 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 871585007283 active site 871585007284 dimer interface [polypeptide binding]; other site 871585007285 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 871585007286 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 871585007287 active site 871585007288 FMN binding site [chemical binding]; other site 871585007289 substrate binding site [chemical binding]; other site 871585007290 3Fe-4S cluster binding site [ion binding]; other site 871585007291 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 871585007292 domain interface; other site 871585007293 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 871585007294 active site 871585007295 dimer interface [polypeptide binding]; other site 871585007296 metal binding site [ion binding]; metal-binding site 871585007297 shikimate kinase; Reviewed; Region: aroK; PRK00131 871585007298 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 871585007299 ADP binding site [chemical binding]; other site 871585007300 magnesium binding site [ion binding]; other site 871585007301 putative shikimate binding site; other site 871585007302 AMIN domain; Region: AMIN; pfam11741 871585007303 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 871585007304 Secretin and TonB N terminus short domain; Region: STN; cl06624 871585007305 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 871585007306 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 871585007307 Pilus assembly protein, PilP; Region: PilP; cl01235 871585007308 Pilus assembly protein, PilO; Region: PilO; cl01234 871585007309 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 871585007310 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 871585007311 Competence protein A; Region: Competence_A; pfam11104 871585007312 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 871585007313 Transglycosylase; Region: Transgly; cl07896 871585007314 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585007315 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 871585007316 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 871585007317 S-adenosylmethionine binding site [chemical binding]; other site 871585007318 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 871585007319 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 871585007320 Mg++ binding site [ion binding]; other site 871585007321 putative catalytic motif [active] 871585007322 putative substrate binding site [chemical binding]; other site 871585007323 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 871585007324 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 871585007325 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871585007326 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871585007327 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 871585007328 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 871585007329 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871585007330 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871585007331 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 871585007332 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 871585007333 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585007334 Septum formation initiator; Region: DivIC; cl11433 871585007335 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 871585007336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585007337 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 871585007338 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 871585007339 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 871585007340 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 871585007341 active site 871585007342 HIGH motif; other site 871585007343 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 871585007344 active site 871585007345 KMSKS motif; other site 871585007346 S-methylmethionine transporter; Provisional; Region: PRK11387 871585007347 Spore germination protein; Region: Spore_permease; cl15802 871585007348 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 871585007349 Cation efflux family; Region: Cation_efflux; cl00316 871585007350 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 871585007351 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 871585007352 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 871585007353 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 871585007354 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 871585007355 Phospholipid methyltransferase; Region: PEMT; cl00763 871585007356 hypothetical protein; Provisional; Region: PRK10215 871585007357 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 871585007358 Sel1 repeat; Region: Sel1; cl02723 871585007359 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 871585007360 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 871585007361 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 871585007362 ABC transporter; Region: ABC_tran_2; pfam12848 871585007363 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 871585007364 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 871585007365 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 871585007366 homodimer interface [polypeptide binding]; other site 871585007367 substrate-cofactor binding pocket; other site 871585007368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585007369 catalytic residue [active] 871585007370 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 871585007371 classical (c) SDRs; Region: SDR_c; cd05233 871585007372 NAD(P) binding site [chemical binding]; other site 871585007373 active site 871585007374 putative transporter; Provisional; Region: PRK11660 871585007375 Sulfate transporter family; Region: Sulfate_transp; cl15842 871585007376 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 871585007377 active site clefts [active] 871585007378 zinc binding site [ion binding]; other site 871585007379 dimer interface [polypeptide binding]; other site 871585007380 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 871585007381 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 871585007382 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 871585007383 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 871585007384 RNA binding site [nucleotide binding]; other site 871585007385 osmolarity response regulator; Provisional; Region: ompR; PRK09468 871585007386 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 871585007387 active site 871585007388 phosphorylation site [posttranslational modification] 871585007389 intermolecular recognition site; other site 871585007390 dimerization interface [polypeptide binding]; other site 871585007391 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 871585007392 DNA binding site [nucleotide binding] 871585007393 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 871585007394 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 871585007395 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 871585007396 dimer interface [polypeptide binding]; other site 871585007397 phosphorylation site [posttranslational modification] 871585007398 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 871585007399 ATP binding site [chemical binding]; other site 871585007400 Mg2+ binding site [ion binding]; other site 871585007401 G-X-G motif; other site 871585007402 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 871585007403 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 871585007404 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 871585007405 putative acetyltransferase; Provisional; Region: PRK03624 871585007406 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585007407 Coenzyme A binding pocket [chemical binding]; other site 871585007408 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585007409 Coenzyme A binding pocket [chemical binding]; other site 871585007410 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 871585007411 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 871585007412 putative active site pocket [active] 871585007413 4-fold oligomerization interface [polypeptide binding]; other site 871585007414 metal binding residues [ion binding]; metal-binding site 871585007415 3-fold/trimer interface [polypeptide binding]; other site 871585007416 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 871585007417 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 871585007418 putative active site [active] 871585007419 oxyanion strand; other site 871585007420 catalytic triad [active] 871585007421 Protein of unknown function (DUF805); Region: DUF805; cl01224 871585007422 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 871585007423 catalytic site [active] 871585007424 putative active site [active] 871585007425 putative substrate binding site [chemical binding]; other site 871585007426 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 871585007427 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 871585007428 catalytic residues [active] 871585007429 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 871585007430 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 871585007431 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 871585007432 Walker A/P-loop; other site 871585007433 ATP binding site [chemical binding]; other site 871585007434 Q-loop/lid; other site 871585007435 ABC transporter signature motif; other site 871585007436 Walker B; other site 871585007437 D-loop; other site 871585007438 H-loop/switch region; other site 871585007439 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 871585007440 non-specific DNA binding site [nucleotide binding]; other site 871585007441 salt bridge; other site 871585007442 sequence-specific DNA binding site [nucleotide binding]; other site 871585007443 Cupin domain; Region: Cupin_2; cl09118 871585007444 EamA-like transporter family; Region: EamA; cl01037 871585007445 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585007446 Predicted membrane protein [Function unknown]; Region: COG3671 871585007447 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 871585007448 DNA-binding site [nucleotide binding]; DNA binding site 871585007449 RNA-binding motif; other site 871585007450 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 871585007451 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 871585007452 Phosphotransferase enzyme family; Region: APH; pfam01636 871585007453 putative active site [active] 871585007454 putative substrate binding site [chemical binding]; other site 871585007455 ATP binding site [chemical binding]; other site 871585007456 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 871585007457 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 871585007458 substrate binding site [chemical binding]; other site 871585007459 glutamase interaction surface [polypeptide binding]; other site 871585007460 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585007461 Helix-turn-helix domain; Region: HTH_18; pfam12833 871585007462 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585007463 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 871585007464 amphipathic channel; other site 871585007465 Asn-Pro-Ala signature motifs; other site 871585007466 LysE type translocator; Region: LysE; cl00565 871585007467 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 871585007468 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 871585007469 active site 871585007470 substrate binding site [chemical binding]; other site 871585007471 Mg2+ binding site [ion binding]; other site 871585007472 potassium uptake protein; Region: kup; TIGR00794 871585007473 K+ potassium transporter; Region: K_trans; cl15781 871585007474 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585007475 Helix-turn-helix domains; Region: HTH; cl00088 871585007476 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 871585007477 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 871585007478 active site 871585007479 metal binding site [ion binding]; metal-binding site 871585007480 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585007481 Helix-turn-helix domains; Region: HTH; cl00088 871585007482 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585007483 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585007484 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 871585007485 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 871585007486 active site 871585007487 catalytic tetrad [active] 871585007488 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585007489 EamA-like transporter family; Region: EamA; cl01037 871585007490 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 871585007491 Helix-turn-helix domains; Region: HTH; cl00088 871585007492 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 871585007493 dimerization interface [polypeptide binding]; other site 871585007494 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 871585007495 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 871585007496 putative substrate translocation pore; other site 871585007497 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 871585007498 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 871585007499 S-adenosylmethionine binding site [chemical binding]; other site 871585007500 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 871585007501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585007502 Pirin-related protein [General function prediction only]; Region: COG1741 871585007503 Cupin domain; Region: Cupin_2; cl09118 871585007504 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 871585007505 Isochorismatase family; Region: Isochorismatase; pfam00857 871585007506 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 871585007507 catalytic triad [active] 871585007508 dimer interface [polypeptide binding]; other site 871585007509 conserved cis-peptide bond; other site 871585007510 LysR family transcriptional regulator; Provisional; Region: PRK14997 871585007511 Helix-turn-helix domains; Region: HTH; cl00088 871585007512 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 871585007513 dimerization interface [polypeptide binding]; other site 871585007514 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585007515 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 871585007516 tetramerization interface [polypeptide binding]; other site 871585007517 NAD(P) binding site [chemical binding]; other site 871585007518 catalytic residues [active] 871585007519 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 871585007520 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 871585007521 inhibitor-cofactor binding pocket; inhibition site 871585007522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585007523 catalytic residue [active] 871585007524 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 871585007525 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585007526 DNA-binding site [nucleotide binding]; DNA binding site 871585007527 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 871585007528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585007529 homodimer interface [polypeptide binding]; other site 871585007530 catalytic residue [active] 871585007531 potential frameshift: common BLAST hit: gi|215481957|ref|YP_002324139.1| GABA permease (4-amino butyrate transport carrier) 871585007532 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 871585007533 Spore germination protein; Region: Spore_permease; cl15802 871585007534 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 871585007535 non-specific DNA binding site [nucleotide binding]; other site 871585007536 salt bridge; other site 871585007537 sequence-specific DNA binding site [nucleotide binding]; other site 871585007538 Cupin domain; Region: Cupin_2; cl09118 871585007539 AzlC protein; Region: AzlC; cl00570 871585007540 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 871585007541 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 871585007542 dimer interface [polypeptide binding]; other site 871585007543 ssDNA binding site [nucleotide binding]; other site 871585007544 tetramer (dimer of dimers) interface [polypeptide binding]; other site 871585007545 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 871585007546 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871585007547 putative substrate translocation pore; other site 871585007548 Integral membrane protein TerC family; Region: TerC; cl10468 871585007549 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 871585007550 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 871585007551 DNA binding residues [nucleotide binding] 871585007552 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 871585007553 classical (c) SDRs; Region: SDR_c; cd05233 871585007554 NAD(P) binding site [chemical binding]; other site 871585007555 active site 871585007556 GlpM protein; Region: GlpM; cl01212 871585007557 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 871585007558 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 871585007559 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 871585007560 putative NAD(P) binding site [chemical binding]; other site 871585007561 putative dimer interface [polypeptide binding]; other site 871585007562 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585007563 Helix-turn-helix domains; Region: HTH; cl00088 871585007564 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 871585007565 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 871585007566 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 871585007567 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 871585007568 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871585007569 metal binding site [ion binding]; metal-binding site 871585007570 active site 871585007571 I-site; other site 871585007572 BCCT family transporter; Region: BCCT; cl00569 871585007573 Sodium:solute symporter family; Region: SSF; cl00456 871585007574 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 871585007575 Protein of unknown function, DUF485; Region: DUF485; cl01231 871585007576 Sodium:solute symporter family; Region: SSF; cl00456 871585007577 PAS fold; Region: PAS_7; pfam12860 871585007578 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 871585007579 dimer interface [polypeptide binding]; other site 871585007580 phosphorylation site [posttranslational modification] 871585007581 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 871585007582 ATP binding site [chemical binding]; other site 871585007583 Mg2+ binding site [ion binding]; other site 871585007584 G-X-G motif; other site 871585007585 Response regulator receiver domain; Region: Response_reg; pfam00072 871585007586 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 871585007587 active site 871585007588 phosphorylation site [posttranslational modification] 871585007589 intermolecular recognition site; other site 871585007590 dimerization interface [polypeptide binding]; other site 871585007591 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 871585007592 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 871585007593 active site 871585007594 phosphorylation site [posttranslational modification] 871585007595 intermolecular recognition site; other site 871585007596 dimerization interface [polypeptide binding]; other site 871585007597 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 871585007598 DNA binding residues [nucleotide binding] 871585007599 dimerization interface [polypeptide binding]; other site 871585007600 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585007601 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 871585007602 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 871585007603 active site 871585007604 dimer interface [polypeptide binding]; other site 871585007605 non-prolyl cis peptide bond; other site 871585007606 insertion regions; other site 871585007607 Helix-turn-helix domains; Region: HTH; cl00088 871585007608 Isochorismatase family; Region: Isochorismatase; pfam00857 871585007609 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 871585007610 catalytic triad [active] 871585007611 conserved cis-peptide bond; other site 871585007612 potential frameshift: common BLAST hit: gi|299768418|ref|YP_003730444.1| acetate--CoA ligase 871585007613 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585007614 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 871585007615 AMP-binding enzyme; Region: AMP-binding; cl15778 871585007616 Protein of unknown function (DUF805); Region: DUF805; cl01224 871585007617 Mechanosensitive ion channel; Region: MS_channel; pfam00924 871585007618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 871585007619 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 871585007620 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 871585007621 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 871585007622 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 871585007623 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 871585007624 FMN binding site [chemical binding]; other site 871585007625 active site 871585007626 substrate binding site [chemical binding]; other site 871585007627 catalytic residue [active] 871585007628 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 871585007629 putative DNA binding site [nucleotide binding]; other site 871585007630 dimerization interface [polypeptide binding]; other site 871585007631 putative Zn2+ binding site [ion binding]; other site 871585007632 peptide chain release factor 2; Provisional; Region: PRK08787 871585007633 RF-1 domain; Region: RF-1; cl02875 871585007634 RF-1 domain; Region: RF-1; cl02875 871585007635 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 871585007636 DHH family; Region: DHH; pfam01368 871585007637 DHHA1 domain; Region: DHHA1; pfam02272 871585007638 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 871585007639 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 871585007640 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 871585007641 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 871585007642 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 871585007643 active site 871585007644 substrate binding site [chemical binding]; other site 871585007645 metal binding site [ion binding]; metal-binding site 871585007646 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 871585007647 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 871585007648 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 871585007649 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 871585007650 active site 871585007651 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585007652 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 871585007653 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 871585007654 N-terminal plug; other site 871585007655 ligand-binding site [chemical binding]; other site 871585007656 Predicted membrane protein [Function unknown]; Region: COG2119 871585007657 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 871585007658 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 871585007659 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 871585007660 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 871585007661 E3 interaction surface; other site 871585007662 lipoyl attachment site [posttranslational modification]; other site 871585007663 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 871585007664 E3 interaction surface; other site 871585007665 lipoyl attachment site [posttranslational modification]; other site 871585007666 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 871585007667 E3 interaction surface; other site 871585007668 lipoyl attachment site [posttranslational modification]; other site 871585007669 e3 binding domain; Region: E3_binding; pfam02817 871585007670 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 871585007671 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 871585007672 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 871585007673 dimer interface [polypeptide binding]; other site 871585007674 TPP-binding site [chemical binding]; other site 871585007675 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 871585007676 Peptidase family M23; Region: Peptidase_M23; pfam01551 871585007677 Protein of unknown function (DUF721); Region: DUF721; cl02324 871585007678 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 871585007679 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 871585007680 cell division protein FtsZ; Validated; Region: PRK09330 871585007681 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 871585007682 nucleotide binding site [chemical binding]; other site 871585007683 SulA interaction site; other site 871585007684 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 871585007685 Cell division protein FtsA; Region: FtsA; cl11496 871585007686 Cell division protein FtsA; Region: FtsA; cl11496 871585007687 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 871585007688 Cell division protein FtsQ; Region: FtsQ; pfam03799 871585007689 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 871585007690 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 871585007691 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585007692 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 871585007693 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 871585007694 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871585007695 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871585007696 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 871585007697 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 871585007698 active site 871585007699 homodimer interface [polypeptide binding]; other site 871585007700 glutathione synthetase; Provisional; Region: PRK05246 871585007701 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 871585007702 ATP-grasp domain; Region: ATP-grasp_4; cl03087 871585007703 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 871585007704 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 871585007705 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 871585007706 N-terminal plug; other site 871585007707 ligand-binding site [chemical binding]; other site 871585007708 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 871585007709 Helix-turn-helix domain; Region: HTH_18; pfam12833 871585007710 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 871585007711 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871585007712 active site 871585007713 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 871585007714 putative active site [active] 871585007715 putative catalytic site [active] 871585007716 putative DNA binding site [nucleotide binding]; other site 871585007717 putative phosphate binding site [ion binding]; other site 871585007718 metal binding site A [ion binding]; metal-binding site 871585007719 putative AP binding site [nucleotide binding]; other site 871585007720 putative metal binding site B [ion binding]; other site 871585007721 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 871585007722 ArsC family; Region: ArsC; pfam03960 871585007723 putative catalytic residues [active] 871585007724 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 871585007725 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 871585007726 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 871585007727 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 871585007728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871585007729 metal binding site [ion binding]; metal-binding site 871585007730 active site 871585007731 I-site; other site 871585007732 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 871585007733 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 871585007734 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 871585007735 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 871585007736 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 871585007737 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 871585007738 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 871585007739 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 871585007740 30S subunit binding site; other site 871585007741 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 871585007742 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 871585007743 active site 871585007744 catalytic site [active] 871585007745 tetramer interface [polypeptide binding]; other site 871585007746 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 871585007747 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 871585007748 active site 871585007749 homotetramer interface [polypeptide binding]; other site 871585007750 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 871585007751 xanthine permease; Region: pbuX; TIGR03173 871585007752 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 871585007753 hypothetical protein; Provisional; Region: PRK07538 871585007754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585007755 allantoicase; Region: allantoicase; TIGR02961 871585007756 Allantoicase repeat; Region: Allantoicase; pfam03561 871585007757 Allantoicase repeat; Region: Allantoicase; pfam03561 871585007758 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 871585007759 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 871585007760 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 871585007761 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 871585007762 ATP binding site [chemical binding]; other site 871585007763 Mg2+ binding site [ion binding]; other site 871585007764 G-X-G motif; other site 871585007765 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 871585007766 anchoring element; other site 871585007767 dimer interface [polypeptide binding]; other site 871585007768 ATP binding site [chemical binding]; other site 871585007769 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 871585007770 active site 871585007771 metal binding site [ion binding]; metal-binding site 871585007772 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 871585007773 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 871585007774 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 871585007775 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585007776 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 871585007777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 871585007778 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 871585007779 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 871585007780 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 871585007781 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 871585007782 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 871585007783 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 871585007784 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 871585007785 Protein of unknown function (DUF445); Region: DUF445; pfam04286 871585007786 methionine aminotransferase; Validated; Region: PRK09082 871585007787 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 871585007788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585007789 homodimer interface [polypeptide binding]; other site 871585007790 catalytic residue [active] 871585007791 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 871585007792 MatE; Region: MatE; cl10513 871585007793 MatE; Region: MatE; cl10513 871585007794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585007795 short chain dehydrogenase; Provisional; Region: PRK07832 871585007796 NAD(P) binding site [chemical binding]; other site 871585007797 active site 871585007798 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585007799 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 871585007800 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 871585007801 active site 871585007802 phosphorylation site [posttranslational modification] 871585007803 intermolecular recognition site; other site 871585007804 dimerization interface [polypeptide binding]; other site 871585007805 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 871585007806 DNA binding site [nucleotide binding] 871585007807 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 871585007808 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 871585007809 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 871585007810 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 871585007811 dimer interface [polypeptide binding]; other site 871585007812 phosphorylation site [posttranslational modification] 871585007813 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 871585007814 ATP binding site [chemical binding]; other site 871585007815 Mg2+ binding site [ion binding]; other site 871585007816 G-X-G motif; other site 871585007817 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585007818 Secretory lipase; Region: LIP; pfam03583 871585007819 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 871585007820 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 871585007821 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 871585007822 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 871585007823 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 871585007824 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 871585007825 active site residue [active] 871585007826 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 871585007827 active site residue [active] 871585007828 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 871585007829 active site 871585007830 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 871585007831 putative active site [active] 871585007832 dimerization interface [polypeptide binding]; other site 871585007833 putative tRNAtyr binding site [nucleotide binding]; other site 871585007834 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 871585007835 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 871585007836 phosphoserine phosphatase SerB; Region: serB; TIGR00338 871585007837 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 871585007838 motif II; other site 871585007839 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 871585007840 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 871585007841 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 871585007842 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 871585007843 dimerization interface [polypeptide binding]; other site 871585007844 active site 871585007845 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 871585007846 homopentamer interface [polypeptide binding]; other site 871585007847 active site 871585007848 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 871585007849 thiamine monophosphate kinase; Provisional; Region: PRK05731 871585007850 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 871585007851 ATP binding site [chemical binding]; other site 871585007852 dimerization interface [polypeptide binding]; other site 871585007853 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 871585007854 tetramer interfaces [polypeptide binding]; other site 871585007855 binuclear metal-binding site [ion binding]; other site 871585007856 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 871585007857 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 871585007858 Substrate binding site; other site 871585007859 Mg++ binding site; other site 871585007860 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 871585007861 active site 871585007862 substrate binding site [chemical binding]; other site 871585007863 CoA binding site [chemical binding]; other site 871585007864 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 871585007865 active site 871585007866 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 871585007867 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 871585007868 dimer interface [polypeptide binding]; other site 871585007869 active site 871585007870 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 871585007871 dimer interface [polypeptide binding]; other site 871585007872 active site 871585007873 LysE type translocator; Region: LysE; cl00565 871585007874 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 871585007875 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 871585007876 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 871585007877 motif II; other site 871585007878 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 871585007879 Arginase family; Region: Arginase; cl00306 871585007880 imidazolonepropionase; Validated; Region: PRK09356 871585007881 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 871585007882 active site 871585007883 putative proline-specific permease; Provisional; Region: proY; PRK10580 871585007884 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 871585007885 active sites [active] 871585007886 tetramer interface [polypeptide binding]; other site 871585007887 urocanate hydratase; Provisional; Region: PRK05414 871585007888 HutD; Region: HutD; cl01532 871585007889 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 871585007890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585007891 DNA-binding site [nucleotide binding]; DNA binding site 871585007892 UTRA domain; Region: UTRA; cl01230 871585007893 Acyltransferase family; Region: Acyl_transf_3; pfam01757 871585007894 OpgC protein; Region: OpgC_C; cl00792 871585007895 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 871585007896 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585007897 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 871585007898 Peptidase M15; Region: Peptidase_M15_3; cl01194 871585007899 aromatic amino acid transporter; Provisional; Region: PRK10238 871585007900 Spore germination protein; Region: Spore_permease; cl15802 871585007901 fumarylacetoacetase; Region: PLN02856 871585007902 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 871585007903 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 871585007904 GST_N family, Class Zeta 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_Zeta; cd03042 871585007905 maleylacetoacetate isomerase; Region: maiA; TIGR01262 871585007906 C-terminal domain interface [polypeptide binding]; other site 871585007907 GSH binding site (G-site) [chemical binding]; other site 871585007908 putative dimer interface [polypeptide binding]; other site 871585007909 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 871585007910 dimer interface [polypeptide binding]; other site 871585007911 N-terminal domain interface [polypeptide binding]; other site 871585007912 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 871585007913 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 871585007914 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 871585007915 Zn binding site [ion binding]; other site 871585007916 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 871585007917 Helix-turn-helix domains; Region: HTH; cl00088 871585007918 Bacterial transcriptional regulator; Region: IclR; pfam01614 871585007919 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 871585007920 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 871585007921 dimer interface [polypeptide binding]; other site 871585007922 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 871585007923 active site 871585007924 Fe binding site [ion binding]; other site 871585007925 Protein of unknown function (DUF523); Region: DUF523; cl00733 871585007926 multidrug efflux protein; Reviewed; Region: PRK01766 871585007927 MatE; Region: MatE; cl10513 871585007928 MatE; Region: MatE; cl10513 871585007929 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 871585007930 Membrane transport protein; Region: Mem_trans; cl09117 871585007931 Isochorismatase family; Region: Isochorismatase; pfam00857 871585007932 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 871585007933 catalytic triad [active] 871585007934 metal binding site [ion binding]; metal-binding site 871585007935 conserved cis-peptide bond; other site 871585007936 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 871585007937 dihydrodipicolinate synthase; Region: dapA; TIGR00674 871585007938 dimer interface [polypeptide binding]; other site 871585007939 active site 871585007940 catalytic residue [active] 871585007941 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 871585007942 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 871585007943 ATP binding site [chemical binding]; other site 871585007944 active site 871585007945 substrate binding site [chemical binding]; other site 871585007946 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 871585007947 recombination factor protein RarA; Reviewed; Region: PRK13342 871585007948 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 871585007949 Walker A motif; other site 871585007950 ATP binding site [chemical binding]; other site 871585007951 Walker B motif; other site 871585007952 arginine finger; other site 871585007953 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 871585007954 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 871585007955 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 871585007956 Flagellin N-methylase; Region: FliB; cl00497 871585007957 hypothetical protein; Provisional; Region: PRK13682 871585007958 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 871585007959 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 871585007960 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 871585007961 nucleotide binding site/active site [active] 871585007962 HIT family signature motif; other site 871585007963 catalytic residue [active] 871585007964 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 871585007965 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 871585007966 minor groove reading motif; other site 871585007967 helix-hairpin-helix signature motif; other site 871585007968 substrate binding pocket [chemical binding]; other site 871585007969 active site 871585007970 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 871585007971 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 871585007972 DNA binding and oxoG recognition site [nucleotide binding] 871585007973 Peptidase family M23; Region: Peptidase_M23; pfam01551 871585007974 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 871585007975 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 871585007976 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 871585007977 putative NAD(P) binding site [chemical binding]; other site 871585007978 putative substrate binding site [chemical binding]; other site 871585007979 catalytic Zn binding site [ion binding]; other site 871585007980 structural Zn binding site [ion binding]; other site 871585007981 dimer interface [polypeptide binding]; other site 871585007982 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 871585007983 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585007984 DNA-binding site [nucleotide binding]; DNA binding site 871585007985 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 871585007986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585007987 homodimer interface [polypeptide binding]; other site 871585007988 catalytic residue [active] 871585007989 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585007990 Helix-turn-helix domains; Region: HTH; cl00088 871585007991 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 871585007992 putative effector binding pocket; other site 871585007993 dimerization interface [polypeptide binding]; other site 871585007994 potential frameshift: common BLAST hit: gi|169794242|ref|YP_001712035.1| 2,5-diketo-D-gluconate reductase B 871585007995 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 871585007996 catalytic tetrad [active] 871585007997 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; cl00470 871585007998 active site 871585007999 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 871585008000 putative substrate translocation pore; other site 871585008001 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 871585008002 putative lipid binding site [chemical binding]; other site 871585008003 dihydrodipicolinate reductase; Provisional; Region: PRK00048 871585008004 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008005 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 871585008006 chaperone protein DnaJ; Provisional; Region: PRK10767 871585008007 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 871585008008 HSP70 interaction site [polypeptide binding]; other site 871585008009 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 871585008010 substrate binding site [polypeptide binding]; other site 871585008011 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 871585008012 Zn binding sites [ion binding]; other site 871585008013 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 871585008014 dimer interface [polypeptide binding]; other site 871585008015 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 871585008016 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 871585008017 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 871585008018 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 871585008019 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 871585008020 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585008021 Helix-turn-helix domains; Region: HTH; cl00088 871585008022 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 871585008023 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 871585008024 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 871585008025 uracil-xanthine permease; Region: ncs2; TIGR00801 871585008026 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585008027 Helix-turn-helix domains; Region: HTH; cl00088 871585008028 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 871585008029 dimerization interface [polypeptide binding]; other site 871585008030 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 871585008031 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 871585008032 Dehydratase family; Region: ILVD_EDD; cl00340 871585008033 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 871585008034 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 871585008035 putative active site [active] 871585008036 substrate binding site [chemical binding]; other site 871585008037 putative cosubstrate binding site; other site 871585008038 catalytic site [active] 871585008039 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 871585008040 substrate binding site [chemical binding]; other site 871585008041 16S rRNA methyltransferase B; Provisional; Region: PRK10901 871585008042 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 871585008043 putative RNA binding site [nucleotide binding]; other site 871585008044 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 871585008045 S-adenosylmethionine binding site [chemical binding]; other site 871585008046 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 871585008047 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 871585008048 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 871585008049 dimer interface [polypeptide binding]; other site 871585008050 N-terminal domain interface [polypeptide binding]; other site 871585008051 substrate binding pocket (H-site) [chemical binding]; other site 871585008052 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 871585008053 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 871585008054 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585008055 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 871585008056 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 871585008057 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 871585008058 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 871585008059 active site 871585008060 HIGH motif; other site 871585008061 nucleotide binding site [chemical binding]; other site 871585008062 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 871585008063 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 871585008064 active site 871585008065 KMSKS motif; other site 871585008066 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 871585008067 tRNA binding surface [nucleotide binding]; other site 871585008068 anticodon binding site; other site 871585008069 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 871585008070 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 871585008071 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 871585008072 active site 871585008073 Riboflavin kinase; Region: Flavokinase; cl03312 871585008074 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 871585008075 gating phenylalanine in ion channel; other site 871585008076 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 871585008077 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 871585008078 Helix-turn-helix domains; Region: HTH; cl00088 871585008079 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 871585008080 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 871585008081 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 871585008082 Walker A/P-loop; other site 871585008083 ATP binding site [chemical binding]; other site 871585008084 Q-loop/lid; other site 871585008085 ABC transporter signature motif; other site 871585008086 Walker B; other site 871585008087 D-loop; other site 871585008088 H-loop/switch region; other site 871585008089 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871585008090 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 871585008091 putative PBP binding loops; other site 871585008092 dimer interface [polypeptide binding]; other site 871585008093 ABC-ATPase subunit interface; other site 871585008094 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 871585008095 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 871585008096 active site 871585008097 dimer interface [polypeptide binding]; other site 871585008098 non-prolyl cis peptide bond; other site 871585008099 insertion regions; other site 871585008100 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 871585008101 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 871585008102 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 871585008103 substrate binding pocket [chemical binding]; other site 871585008104 membrane-bound complex binding site; other site 871585008105 hinge residues; other site 871585008106 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 871585008107 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 871585008108 substrate binding pocket [chemical binding]; other site 871585008109 membrane-bound complex binding site; other site 871585008110 hinge residues; other site 871585008111 N-acetylglutamate synthase; Validated; Region: PRK05279 871585008112 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 871585008113 putative nucleotide binding site [chemical binding]; other site 871585008114 putative substrate binding site [chemical binding]; other site 871585008115 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585008116 Coenzyme A binding pocket [chemical binding]; other site 871585008117 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 871585008118 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 871585008119 short chain dehydrogenase; Provisional; Region: PRK08703 871585008120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008121 NAD(P) binding site [chemical binding]; other site 871585008122 active site 871585008123 phosphoglycolate phosphatase; Provisional; Region: PRK13222 871585008124 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 871585008125 active site 871585008126 motif I; other site 871585008127 motif II; other site 871585008128 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 871585008129 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 871585008130 S-adenosylmethionine binding site [chemical binding]; other site 871585008131 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 871585008132 catalytic residues [active] 871585008133 hinge region; other site 871585008134 alpha helical domain; other site 871585008135 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585008136 Helix-turn-helix domains; Region: HTH; cl00088 871585008137 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 871585008138 Helix-turn-helix domains; Region: HTH; cl00088 871585008139 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 871585008140 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 871585008141 FAD binding pocket [chemical binding]; other site 871585008142 FAD binding motif [chemical binding]; other site 871585008143 phosphate binding motif [ion binding]; other site 871585008144 beta-alpha-beta structure motif; other site 871585008145 NAD binding pocket [chemical binding]; other site 871585008146 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 871585008147 catalytic loop [active] 871585008148 iron binding site [ion binding]; other site 871585008149 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 871585008150 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 871585008151 putative di-iron ligands [ion binding]; other site 871585008152 ribonuclease PH; Reviewed; Region: rph; PRK00173 871585008153 Ribonuclease PH; Region: RNase_PH_bact; cd11362 871585008154 hexamer interface [polypeptide binding]; other site 871585008155 active site 871585008156 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 871585008157 Phosphoesterase family; Region: Phosphoesterase; cl15450 871585008158 Domain of unknown function (DUF756); Region: DUF756; pfam05506 871585008159 Domain of unknown function (DUF756); Region: DUF756; pfam05506 871585008160 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 871585008161 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 871585008162 dimerization interface [polypeptide binding]; other site 871585008163 active site 871585008164 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 871585008165 amidase catalytic site [active] 871585008166 Zn binding residues [ion binding]; other site 871585008167 substrate binding site [chemical binding]; other site 871585008168 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 871585008169 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 871585008170 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 871585008171 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 871585008172 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 871585008173 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 871585008174 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 871585008175 tyrosine kinase; Provisional; Region: PRK11519 871585008176 Chain length determinant protein; Region: Wzz; cl15801 871585008177 Chain length determinant protein; Region: Wzz; cl15801 871585008178 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585008179 Low molecular weight phosphatase family; Region: LMWPc; cd00115 871585008180 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 871585008181 active site 871585008182 polysaccharide export protein Wza; Provisional; Region: PRK15078 871585008183 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 871585008184 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 871585008185 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 871585008186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008188 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 871585008189 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 871585008190 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 871585008191 putative trimer interface [polypeptide binding]; other site 871585008192 putative active site [active] 871585008193 putative substrate binding site [chemical binding]; other site 871585008194 putative CoA binding site [chemical binding]; other site 871585008195 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 871585008196 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 871585008197 inhibitor-cofactor binding pocket; inhibition site 871585008198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585008199 catalytic residue [active] 871585008200 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 871585008201 trimer interface [polypeptide binding]; other site 871585008202 active site 871585008203 substrate binding site [chemical binding]; other site 871585008204 CoA binding site [chemical binding]; other site 871585008205 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 871585008206 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 871585008207 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 871585008208 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 871585008209 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 871585008210 active site 871585008211 homodimer interface [polypeptide binding]; other site 871585008212 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 871585008213 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 871585008214 active site 871585008215 Bacterial sugar transferase; Region: Bac_transf; cl00939 871585008216 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 871585008217 active site 871585008218 tetramer interface; other site 871585008219 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 871585008220 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 871585008221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008222 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 871585008223 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 871585008224 active site 871585008225 dimer interface [polypeptide binding]; other site 871585008226 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 871585008227 dimer interface [polypeptide binding]; other site 871585008228 active site 871585008229 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 871585008230 UDP-glucose 4-epimerase; Region: PLN02240 871585008231 NAD binding site [chemical binding]; other site 871585008232 homodimer interface [polypeptide binding]; other site 871585008233 active site 871585008234 substrate binding site [chemical binding]; other site 871585008235 OpgC protein; Region: OpgC_C; cl00792 871585008236 Acyltransferase family; Region: Acyl_transf_3; pfam01757 871585008237 Sulfatase; Region: Sulfatase; cl10460 871585008238 phosphomannomutase CpsG; Provisional; Region: PRK15414 871585008239 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 871585008240 active site 871585008241 substrate binding site [chemical binding]; other site 871585008242 metal binding site [ion binding]; metal-binding site 871585008243 L-lactate permease; Region: Lactate_perm; cl00701 871585008244 glycolate transporter; Provisional; Region: PRK09695 871585008245 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 871585008246 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585008247 DNA-binding site [nucleotide binding]; DNA binding site 871585008248 FCD domain; Region: FCD; cl11656 871585008249 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 871585008250 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 871585008251 phosphate binding site [ion binding]; other site 871585008252 D-lactate dehydrogenase; Provisional; Region: PRK11183 871585008253 FAD binding domain; Region: FAD_binding_4; pfam01565 871585008254 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 871585008255 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 871585008256 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 871585008257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585008258 homodimer interface [polypeptide binding]; other site 871585008259 catalytic residue [active] 871585008260 Transcriptional regulators [Transcription]; Region: GntR; COG1802 871585008261 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585008262 DNA-binding site [nucleotide binding]; DNA binding site 871585008263 FCD domain; Region: FCD; cl11656 871585008264 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 871585008265 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 871585008266 tetramer interface [polypeptide binding]; other site 871585008267 active site 871585008268 Mg2+/Mn2+ binding site [ion binding]; other site 871585008269 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 871585008270 Citrate synthase; Region: Citrate_synt; pfam00285 871585008271 oxalacetate binding site [chemical binding]; other site 871585008272 citrylCoA binding site [chemical binding]; other site 871585008273 coenzyme A binding site [chemical binding]; other site 871585008274 catalytic triad [active] 871585008275 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 871585008276 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 871585008277 substrate binding site [chemical binding]; other site 871585008278 ligand binding site [chemical binding]; other site 871585008279 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 871585008280 substrate binding site [chemical binding]; other site 871585008281 AAA domain; Region: AAA_21; pfam13304 871585008282 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 871585008283 Predicted acetyltransferase [General function prediction only]; Region: COG3981 871585008284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871585008285 Coenzyme A binding pocket [chemical binding]; other site 871585008286 Sel1 repeat; Region: Sel1; cl02723 871585008287 Sel1 repeat; Region: Sel1; cl02723 871585008288 Sel1 repeat; Region: Sel1; cl02723 871585008289 Sel1 repeat; Region: Sel1; cl02723 871585008290 Sel1 repeat; Region: Sel1; cl02723 871585008291 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 871585008292 potential frameshift: common BLAST hit: gi|126640621|ref|YP_001083605.1| putative VGR-related protein 871585008293 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 871585008294 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 871585008295 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 871585008296 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 871585008297 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 871585008298 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 871585008299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008300 NAD(P) binding site [chemical binding]; other site 871585008301 active site 871585008302 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 871585008303 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 871585008304 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 871585008305 active site 871585008306 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 871585008307 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 871585008308 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 871585008309 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 871585008310 N-terminal plug; other site 871585008311 ligand-binding site [chemical binding]; other site 871585008312 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 871585008313 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871585008314 Helix-turn-helix domains; Region: HTH; cl00088 871585008315 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 871585008316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008317 mRNA stabilisation; Region: mRNA_stabil; pfam13929 871585008318 alanine racemase; Reviewed; Region: dadX; PRK03646 871585008319 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 871585008320 active site 871585008321 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 871585008322 substrate binding site [chemical binding]; other site 871585008323 catalytic residues [active] 871585008324 dimer interface [polypeptide binding]; other site 871585008325 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 871585008326 homotrimer interaction site [polypeptide binding]; other site 871585008327 putative active site [active] 871585008328 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 871585008329 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 871585008330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585008331 Helix-turn-helix domains; Region: HTH; cl00088 871585008332 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 871585008333 dimerization interface [polypeptide binding]; other site 871585008334 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 871585008335 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585008336 tetrameric interface [polypeptide binding]; other site 871585008337 NAD binding site [chemical binding]; other site 871585008338 catalytic residues [active] 871585008339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008340 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 871585008341 potential frameshift: common BLAST hit: gi|215485045|ref|YP_002327286.1| acetyl-coenzyme A synthetase 871585008342 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 871585008343 AMP-binding enzyme; Region: AMP-binding; cl15778 871585008344 AMP-binding enzyme; Region: AMP-binding; cl15778 871585008345 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585008346 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585008347 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871585008348 active site 871585008349 enoyl-CoA hydratase; Provisional; Region: PRK05862 871585008350 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 871585008351 substrate binding site [chemical binding]; other site 871585008352 oxyanion hole (OAH) forming residues; other site 871585008353 trimer interface [polypeptide binding]; other site 871585008354 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 871585008355 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 871585008356 substrate binding site [chemical binding]; other site 871585008357 oxyanion hole (OAH) forming residues; other site 871585008358 trimer interface [polypeptide binding]; other site 871585008359 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 871585008360 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 871585008361 metabolite-proton symporter; Region: 2A0106; TIGR00883 871585008362 putative substrate translocation pore; other site 871585008363 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 871585008364 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 871585008365 Autoinducer binding domain; Region: Autoind_bind; pfam03472 871585008366 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 871585008367 DNA binding residues [nucleotide binding] 871585008368 dimerization interface [polypeptide binding]; other site 871585008369 acyl-CoA synthetase; Validated; Region: PRK05850 871585008370 AMP-binding enzyme; Region: AMP-binding; cl15778 871585008371 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 871585008372 active site 871585008373 Phosphopantetheine attachment site; Region: PP-binding; cl09936 871585008374 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 871585008375 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 871585008376 AMP-binding enzyme; Region: AMP-binding; cl15778 871585008377 Phosphopantetheine attachment site; Region: PP-binding; cl09936 871585008378 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 871585008379 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 871585008380 hydrophobic ligand binding site; other site 871585008381 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 871585008382 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 871585008383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008384 NAD(P) binding site [chemical binding]; other site 871585008385 active site 871585008386 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585008387 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 871585008388 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 871585008389 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 871585008390 BolA-like protein; Region: BolA; cl00386 871585008391 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 871585008392 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 871585008393 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 871585008394 P-loop; other site 871585008395 Magnesium ion binding site [ion binding]; other site 871585008396 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 871585008397 Magnesium ion binding site [ion binding]; other site 871585008398 LysE type translocator; Region: LysE; cl00565 871585008399 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 871585008400 DoxX; Region: DoxX; cl00976 871585008401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 871585008402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 871585008403 GMP synthase; Reviewed; Region: guaA; PRK00074 871585008404 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 871585008405 AMP/PPi binding site [chemical binding]; other site 871585008406 candidate oxyanion hole; other site 871585008407 catalytic triad [active] 871585008408 potential glutamine specificity residues [chemical binding]; other site 871585008409 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 871585008410 ATP Binding subdomain [chemical binding]; other site 871585008411 Ligand Binding sites [chemical binding]; other site 871585008412 Dimerization subdomain; other site 871585008413 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 871585008414 active site 871585008415 NTP binding site [chemical binding]; other site 871585008416 metal binding triad [ion binding]; metal-binding site 871585008417 antibiotic binding site [chemical binding]; other site 871585008418 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 871585008419 Helix-turn-helix domains; Region: HTH; cl00088 871585008420 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 871585008421 Pirin-related protein [General function prediction only]; Region: COG1741 871585008422 Cupin domain; Region: Cupin_2; cl09118 871585008423 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 871585008424 OsmC-like protein; Region: OsmC; cl00767 871585008425 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 871585008426 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 871585008427 putative C-terminal domain interface [polypeptide binding]; other site 871585008428 putative GSH binding site (G-site) [chemical binding]; other site 871585008429 putative dimer interface [polypeptide binding]; other site 871585008430 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 871585008431 putative N-terminal domain interface [polypeptide binding]; other site 871585008432 putative dimer interface [polypeptide binding]; other site 871585008433 putative substrate binding pocket (H-site) [chemical binding]; other site 871585008434 cell division protein FtsN; Region: ftsN; TIGR02223 871585008435 Sporulation related domain; Region: SPOR; cl10051 871585008436 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 871585008437 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 871585008438 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 871585008439 active site 871585008440 HIGH motif; other site 871585008441 nucleotide binding site [chemical binding]; other site 871585008442 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 871585008443 KMSK motif region; other site 871585008444 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 871585008445 tRNA binding surface [nucleotide binding]; other site 871585008446 anticodon binding site; other site 871585008447 malate dehydrogenase; Provisional; Region: PRK13529 871585008448 Malic enzyme, N-terminal domain; Region: malic; pfam00390 871585008449 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 871585008450 NAD(P) binding site [chemical binding]; other site 871585008451 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 871585008452 LysE type translocator; Region: LysE; cl00565 871585008453 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 871585008454 ABC-ATPase subunit interface; other site 871585008455 dimer interface [polypeptide binding]; other site 871585008456 putative PBP binding regions; other site 871585008457 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 871585008458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585008459 Walker A/P-loop; other site 871585008460 ATP binding site [chemical binding]; other site 871585008461 Q-loop/lid; other site 871585008462 ABC transporter signature motif; other site 871585008463 Walker B; other site 871585008464 D-loop; other site 871585008465 H-loop/switch region; other site 871585008466 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 871585008467 metal binding site 2 [ion binding]; metal-binding site 871585008468 putative DNA binding helix; other site 871585008469 metal binding site 1 [ion binding]; metal-binding site 871585008470 dimer interface [polypeptide binding]; other site 871585008471 structural Zn2+ binding site [ion binding]; other site 871585008472 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 871585008473 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 871585008474 intersubunit interface [polypeptide binding]; other site 871585008475 ATP synthase I chain; Region: ATP_synt_I; cl09170 871585008476 ATP synthase A chain; Region: ATP-synt_A; cl00413 871585008477 ATP synthase subunit C; Region: ATP-synt_C; cl00466 871585008478 Plant ATP synthase F0; Region: YMF19; cl07975 871585008479 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 871585008480 Plant ATP synthase F0; Region: YMF19; cl07975 871585008481 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 871585008482 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 871585008483 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 871585008484 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585008485 Walker A motif; other site 871585008486 ATP binding site [chemical binding]; other site 871585008487 Walker B motif; other site 871585008488 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 871585008489 ATP synthase; Region: ATP-synt; cl00365 871585008490 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 871585008491 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 871585008492 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 871585008493 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 871585008494 alpha subunit interaction interface [polypeptide binding]; other site 871585008495 Walker A motif; other site 871585008496 ATP binding site [chemical binding]; other site 871585008497 Walker B motif; other site 871585008498 inhibitor binding site; inhibition site 871585008499 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 871585008500 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 871585008501 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 871585008502 catalytic residues [active] 871585008503 dimer interface [polypeptide binding]; other site 871585008504 Helix-turn-helix domain; Region: HTH_18; pfam12833 871585008505 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585008506 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 871585008507 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 871585008508 putative substrate translocation pore; other site 871585008509 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585008510 Helix-turn-helix domains; Region: HTH; cl00088 871585008511 EamA-like transporter family; Region: EamA; cl01037 871585008512 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585008513 EamA-like transporter family; Region: EamA; cl01037 871585008514 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 871585008515 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 871585008516 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 871585008517 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 871585008518 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 871585008519 active site 871585008520 catalytic residues [active] 871585008521 metal binding site [ion binding]; metal-binding site 871585008522 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 871585008523 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 871585008524 N-terminal plug; other site 871585008525 ligand-binding site [chemical binding]; other site 871585008526 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 871585008527 Helix-turn-helix domains; Region: HTH; cl00088 871585008528 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 871585008529 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 871585008530 dimer interface [polypeptide binding]; other site 871585008531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585008532 catalytic residue [active] 871585008533 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 871585008534 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 871585008535 N-acetyl-D-glucosamine binding site [chemical binding]; other site 871585008536 catalytic residue [active] 871585008537 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585008538 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 871585008539 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 871585008540 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 871585008541 DNA binding residues [nucleotide binding] 871585008542 putative dimer interface [polypeptide binding]; other site 871585008543 putative metal binding residues [ion binding]; other site 871585008544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 871585008545 hypothetical protein; Provisional; Region: PRK01254 871585008546 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 871585008547 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 871585008548 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 871585008549 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 871585008550 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 871585008551 homotrimer interaction site [polypeptide binding]; other site 871585008552 putative active site [active] 871585008553 Inner membrane protein CreD; Region: CreD; cl01844 871585008554 sensory histidine kinase CreC; Provisional; Region: PRK11100 871585008555 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 871585008556 ATP binding site [chemical binding]; other site 871585008557 Mg2+ binding site [ion binding]; other site 871585008558 G-X-G motif; other site 871585008559 DNA-binding response regulator CreB; Provisional; Region: PRK11083 871585008560 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 871585008561 active site 871585008562 phosphorylation site [posttranslational modification] 871585008563 intermolecular recognition site; other site 871585008564 dimerization interface [polypeptide binding]; other site 871585008565 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 871585008566 DNA binding site [nucleotide binding] 871585008567 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 871585008568 active site 871585008569 DNA polymerase IV; Validated; Region: PRK02406 871585008570 DNA binding site [nucleotide binding] 871585008571 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 871585008572 active site 871585008573 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 871585008574 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 871585008575 putative transporter; Provisional; Region: PRK10504 871585008576 putative substrate translocation pore; other site 871585008577 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 871585008578 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 871585008579 Integral membrane protein TerC family; Region: TerC; cl10468 871585008580 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 871585008581 Transporter associated domain; Region: CorC_HlyC; cl08393 871585008582 hypothetical protein; Provisional; Region: PRK01752 871585008583 SEC-C motif; Region: SEC-C; pfam02810 871585008584 Predicted membrane protein [Function unknown]; Region: COG2860 871585008585 UPF0126 domain; Region: UPF0126; pfam03458 871585008586 UPF0126 domain; Region: UPF0126; pfam03458 871585008587 benzoate transport; Region: 2A0115; TIGR00895 871585008588 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 871585008589 putative substrate translocation pore; other site 871585008590 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 871585008591 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 871585008592 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 871585008593 CAP-like domain; other site 871585008594 active site 871585008595 primary dimer interface [polypeptide binding]; other site 871585008596 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 871585008597 AMP-binding enzyme; Region: AMP-binding; cl15778 871585008598 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585008599 MAPEG family; Region: MAPEG; cl09190 871585008600 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 871585008601 dimer interface [polypeptide binding]; other site 871585008602 substrate binding site [chemical binding]; other site 871585008603 metal binding sites [ion binding]; metal-binding site 871585008604 outer membrane porin, OprD family; Region: OprD; pfam03573 871585008605 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 871585008606 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 871585008607 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 871585008608 inhibitor site; inhibition site 871585008609 active site 871585008610 dimer interface [polypeptide binding]; other site 871585008611 catalytic residue [active] 871585008612 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 871585008613 intersubunit interface [polypeptide binding]; other site 871585008614 active site 871585008615 Zn2+ binding site [ion binding]; other site 871585008616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871585008617 DNA-binding site [nucleotide binding]; DNA binding site 871585008618 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 871585008619 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 871585008620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585008621 homodimer interface [polypeptide binding]; other site 871585008622 catalytic residue [active] 871585008623 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 871585008624 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 871585008625 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 871585008626 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585008627 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 871585008628 Membrane fusogenic activity; Region: BMFP; cl01115 871585008629 Nitrogen regulatory protein P-II; Region: P-II; cl00412 871585008630 Nitrogen regulatory protein P-II; Region: P-II; smart00938 871585008631 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 871585008632 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 871585008633 ATP cone domain; Region: ATP-cone; pfam03477 871585008634 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 871585008635 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 871585008636 catalytic motif [active] 871585008637 Zn binding site [ion binding]; other site 871585008638 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 871585008639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008640 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 871585008641 Lumazine binding domain; Region: Lum_binding; pfam00677 871585008642 Lumazine binding domain; Region: Lum_binding; pfam00677 871585008643 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 871585008644 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 871585008645 multifunctional aminopeptidase A; Provisional; Region: PRK00913 871585008646 interface (dimer of trimers) [polypeptide binding]; other site 871585008647 Substrate-binding/catalytic site; other site 871585008648 Zn-binding sites [ion binding]; other site 871585008649 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 871585008650 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 871585008651 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 871585008652 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 871585008653 Sulfatase; Region: Sulfatase; cl10460 871585008654 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 871585008655 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 871585008656 C-terminal peptidase (prc); Region: prc; TIGR00225 871585008657 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 871585008658 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 871585008659 Catalytic dyad [active] 871585008660 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 871585008661 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 871585008662 active site 871585008663 phosphorylation site [posttranslational modification] 871585008664 intermolecular recognition site; other site 871585008665 dimerization interface [polypeptide binding]; other site 871585008666 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 871585008667 Walker A motif; other site 871585008668 ATP binding site [chemical binding]; other site 871585008669 Walker B motif; other site 871585008670 arginine finger; other site 871585008671 Helix-turn-helix domains; Region: HTH; cl00088 871585008672 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 871585008673 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 871585008674 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 871585008675 dimer interface [polypeptide binding]; other site 871585008676 phosphorylation site [posttranslational modification] 871585008677 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 871585008678 ATP binding site [chemical binding]; other site 871585008679 Mg2+ binding site [ion binding]; other site 871585008680 G-X-G motif; other site 871585008681 response regulator; Provisional; Region: PRK09483 871585008682 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 871585008683 active site 871585008684 phosphorylation site [posttranslational modification] 871585008685 intermolecular recognition site; other site 871585008686 dimerization interface [polypeptide binding]; other site 871585008687 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 871585008688 DNA binding residues [nucleotide binding] 871585008689 dimerization interface [polypeptide binding]; other site 871585008690 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 871585008691 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585008692 threonine synthase; Reviewed; Region: PRK06721 871585008693 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 871585008694 homodimer interface [polypeptide binding]; other site 871585008695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585008696 catalytic residue [active] 871585008697 homoserine dehydrogenase; Provisional; Region: PRK06349 871585008698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008699 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 871585008700 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 871585008701 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 871585008702 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 871585008703 dimerization domain [polypeptide binding]; other site 871585008704 dimer interface [polypeptide binding]; other site 871585008705 catalytic residues [active] 871585008706 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 871585008707 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 871585008708 active site 871585008709 Int/Topo IB signature motif; other site 871585008710 FeoA domain; Region: FeoA; cl00838 871585008711 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 871585008712 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 871585008713 G1 box; other site 871585008714 GTP/Mg2+ binding site [chemical binding]; other site 871585008715 Switch I region; other site 871585008716 G2 box; other site 871585008717 G3 box; other site 871585008718 Switch II region; other site 871585008719 G4 box; other site 871585008720 G5 box; other site 871585008721 Nucleoside recognition; Region: Gate; cl00486 871585008722 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 871585008723 Nucleoside recognition; Region: Gate; cl00486 871585008724 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 871585008725 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871585008726 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871585008727 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 871585008728 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 871585008729 active site 871585008730 HIGH motif; other site 871585008731 nucleotide binding site [chemical binding]; other site 871585008732 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 871585008733 active site 871585008734 KMSKS motif; other site 871585008735 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 871585008736 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 871585008737 hexamer interface [polypeptide binding]; other site 871585008738 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 871585008739 active site 871585008740 metal binding site [ion binding]; metal-binding site 871585008741 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 871585008742 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 871585008743 dimer interface [polypeptide binding]; other site 871585008744 ADP-ribose binding site [chemical binding]; other site 871585008745 active site 871585008746 nudix motif; other site 871585008747 metal binding site [ion binding]; metal-binding site 871585008748 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 871585008749 ThiC-associated domain; Region: ThiC-associated; pfam13667 871585008750 ThiC family; Region: ThiC; cl08031 871585008751 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585008752 Helix-turn-helix domains; Region: HTH; cl00088 871585008753 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585008754 EamA-like transporter family; Region: EamA; cl01037 871585008755 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 871585008756 transcriptional regulator PhoU; Provisional; Region: PRK11115 871585008757 PhoU domain; Region: PhoU; pfam01895 871585008758 PhoU domain; Region: PhoU; pfam01895 871585008759 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 871585008760 argininosuccinate lyase; Provisional; Region: PRK00855 871585008761 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 871585008762 active sites [active] 871585008763 tetramer interface [polypeptide binding]; other site 871585008764 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 871585008765 Histidine kinase; Region: His_kinase; pfam06580 871585008766 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 871585008767 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 871585008768 active site 871585008769 phosphorylation site [posttranslational modification] 871585008770 intermolecular recognition site; other site 871585008771 dimerization interface [polypeptide binding]; other site 871585008772 LytTr DNA-binding domain; Region: LytTR; cl04498 871585008773 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 871585008774 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 871585008775 domain interfaces; other site 871585008776 active site 871585008777 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 871585008778 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 871585008779 active site 871585008780 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 871585008781 active site 871585008782 H-NS histone family; Region: Histone_HNS; pfam00816 871585008783 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 871585008784 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 871585008785 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 871585008786 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 871585008787 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 871585008788 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 871585008789 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 871585008790 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 871585008791 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 871585008792 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 871585008793 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 871585008794 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 871585008795 phosphopeptide binding site; other site 871585008796 phosphoglycolate phosphatase; Provisional; Region: PRK13222 871585008797 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 871585008798 motif II; other site 871585008799 anthranilate synthase component I; Provisional; Region: PRK13565 871585008800 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 871585008801 chorismate binding enzyme; Region: Chorismate_bind; cl10555 871585008802 elongation factor Tu; Reviewed; Region: PRK00049 871585008803 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 871585008804 G1 box; other site 871585008805 GEF interaction site [polypeptide binding]; other site 871585008806 GTP/Mg2+ binding site [chemical binding]; other site 871585008807 Switch I region; other site 871585008808 G2 box; other site 871585008809 G3 box; other site 871585008810 Switch II region; other site 871585008811 G4 box; other site 871585008812 G5 box; other site 871585008813 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 871585008814 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 871585008815 Antibiotic Binding Site [chemical binding]; other site 871585008816 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 871585008817 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 871585008818 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 871585008819 putative homodimer interface [polypeptide binding]; other site 871585008820 KOW motif; Region: KOW; cl00354 871585008821 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 871585008822 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 871585008823 23S rRNA interface [nucleotide binding]; other site 871585008824 L7/L12 interface [polypeptide binding]; other site 871585008825 putative thiostrepton binding site; other site 871585008826 L25 interface [polypeptide binding]; other site 871585008827 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 871585008828 mRNA/rRNA interface [nucleotide binding]; other site 871585008829 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 871585008830 23S rRNA interface [nucleotide binding]; other site 871585008831 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 871585008832 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 871585008833 core dimer interface [polypeptide binding]; other site 871585008834 peripheral dimer interface [polypeptide binding]; other site 871585008835 L10 interface [polypeptide binding]; other site 871585008836 L11 interface [polypeptide binding]; other site 871585008837 putative EF-Tu interaction site [polypeptide binding]; other site 871585008838 putative EF-G interaction site [polypeptide binding]; other site 871585008839 potential frameshift: common BLAST hit: gi|215484890|ref|YP_002327129.1| DNA-directed RNA polymerase subunit beta 871585008840 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 871585008841 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 871585008842 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 871585008843 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 871585008844 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 871585008845 RPB11 interaction site [polypeptide binding]; other site 871585008846 RPB12 interaction site [polypeptide binding]; other site 871585008847 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 871585008848 RPB1 interaction site [polypeptide binding]; other site 871585008849 RPB11 interaction site [polypeptide binding]; other site 871585008850 RPB10 interaction site [polypeptide binding]; other site 871585008851 RPB3 interaction site [polypeptide binding]; other site 871585008852 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 871585008853 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 871585008854 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 871585008855 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 871585008856 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 871585008857 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 871585008858 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 871585008859 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 871585008860 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 871585008861 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 871585008862 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 871585008863 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 871585008864 DNA binding site [nucleotide binding] 871585008865 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 871585008866 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 871585008867 CoenzymeA binding site [chemical binding]; other site 871585008868 subunit interaction site [polypeptide binding]; other site 871585008869 PHB binding site; other site 871585008870 short chain dehydrogenase; Validated; Region: PRK05855 871585008871 Predicted permease [General function prediction only]; Region: COG2056 871585008872 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 871585008873 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 871585008874 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 871585008875 heat shock protein 90; Provisional; Region: PRK05218 871585008876 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 871585008877 ATP binding site [chemical binding]; other site 871585008878 Mg2+ binding site [ion binding]; other site 871585008879 G-X-G motif; other site 871585008880 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 871585008881 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 871585008882 catalytic residues [active] 871585008883 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 871585008884 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 871585008885 DNA binding residues [nucleotide binding] 871585008886 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 871585008887 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 871585008888 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 871585008889 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 871585008890 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 871585008891 dimer interface [polypeptide binding]; other site 871585008892 active site 871585008893 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 871585008894 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 871585008895 substrate binding site [chemical binding]; other site 871585008896 oxyanion hole (OAH) forming residues; other site 871585008897 trimer interface [polypeptide binding]; other site 871585008898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585008899 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871585008900 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871585008901 Cupin domain; Region: Cupin_2; cl09118 871585008902 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 871585008903 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 871585008904 GIY-YIG motif/motif A; other site 871585008905 active site 871585008906 catalytic site [active] 871585008907 putative DNA binding site [nucleotide binding]; other site 871585008908 metal binding site [ion binding]; metal-binding site 871585008909 UvrB/uvrC motif; Region: UVR; pfam02151 871585008910 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 871585008911 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 871585008912 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 871585008913 active site 871585008914 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 871585008915 active site 871585008916 dimer interface [polypeptide binding]; other site 871585008917 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 871585008918 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 871585008919 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 871585008920 DNA binding site [nucleotide binding] 871585008921 active site 871585008922 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 871585008923 Transcriptional regulator [Transcription]; Region: IclR; COG1414 871585008924 Bacterial transcriptional regulator; Region: IclR; pfam01614 871585008925 Fusaric acid resistance protein family; Region: FUSC; pfam04632 871585008926 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 871585008927 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 871585008928 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 871585008929 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 871585008930 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 871585008931 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 871585008932 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 871585008933 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 871585008934 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 871585008935 Walker A/P-loop; other site 871585008936 ATP binding site [chemical binding]; other site 871585008937 Q-loop/lid; other site 871585008938 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 871585008939 ABC transporter signature motif; other site 871585008940 Walker B; other site 871585008941 D-loop; other site 871585008942 H-loop/switch region; other site 871585008943 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 871585008944 binding surface 871585008945 Tetratricopeptide repeat; Region: TPR_16; pfam13432 871585008946 TPR motif; other site 871585008947 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 871585008948 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 871585008949 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 871585008950 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 871585008951 EamA-like transporter family; Region: EamA; cl01037 871585008952 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 871585008953 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 871585008954 CoA-binding site [chemical binding]; other site 871585008955 ATP-binding [chemical binding]; other site 871585008956 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 871585008957 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 871585008958 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 871585008959 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 871585008960 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 871585008961 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 871585008962 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 871585008963 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 871585008964 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 871585008965 Walker A motif; other site 871585008966 ATP binding site [chemical binding]; other site 871585008967 Walker B motif; other site 871585008968 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 871585008969 substrate binding site [chemical binding]; other site 871585008970 dimer interface [polypeptide binding]; other site 871585008971 catalytic triad [active] 871585008972 Preprotein translocase SecG subunit; Region: SecG; cl09123 871585008973 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 871585008974 ribosome maturation protein RimP; Reviewed; Region: PRK00092 871585008975 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 871585008976 Sm1 motif; other site 871585008977 D1 - D2 interaction site; other site 871585008978 D3 - B interaction site; other site 871585008979 Hfq - Hfq interaction site; other site 871585008980 RNA binding pocket [nucleotide binding]; other site 871585008981 Sm2 motif; other site 871585008982 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 871585008983 NusA N-terminal domain; Region: NusA_N; pfam08529 871585008984 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 871585008985 RNA binding site [nucleotide binding]; other site 871585008986 homodimer interface [polypeptide binding]; other site 871585008987 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 871585008988 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 871585008989 G-X-X-G motif; other site 871585008990 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 871585008991 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 871585008992 translation initiation factor IF-2; Validated; Region: infB; PRK05306 871585008993 translation initiation factor IF-2; Region: IF-2; TIGR00487 871585008994 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 871585008995 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 871585008996 G1 box; other site 871585008997 putative GEF interaction site [polypeptide binding]; other site 871585008998 GTP/Mg2+ binding site [chemical binding]; other site 871585008999 Switch I region; other site 871585009000 G2 box; other site 871585009001 G3 box; other site 871585009002 Switch II region; other site 871585009003 G4 box; other site 871585009004 G5 box; other site 871585009005 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 871585009006 Translation-initiation factor 2; Region: IF-2; pfam11987 871585009007 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 871585009008 Ribosome-binding factor A; Region: RBFA; cl00542 871585009009 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 871585009010 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 871585009011 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 871585009012 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 871585009013 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 871585009014 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 871585009015 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 871585009016 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 871585009017 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 871585009018 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 871585009019 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 871585009020 potential frameshift: common BLAST hit: gi|299771774|ref|YP_003733800.1| ATP-binding protein 871585009021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585009022 ABC transporter signature motif; other site 871585009023 Walker B; other site 871585009024 D-loop; other site 871585009025 H-loop/switch region; other site 871585009026 AAA domain; Region: AAA_23; pfam13476 871585009027 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 871585009028 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 871585009029 Family description; Region: UvrD_C_2; cl15862 871585009030 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 871585009031 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 871585009032 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 871585009033 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 871585009034 dimer interface [polypeptide binding]; other site 871585009035 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 871585009036 metal binding site [ion binding]; metal-binding site 871585009037 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 871585009038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009039 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 871585009040 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585009041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 871585009042 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 871585009043 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 871585009044 S-adenosylmethionine binding site [chemical binding]; other site 871585009045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009046 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 871585009047 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 871585009048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585009049 active site 871585009050 Domain of unknown function (DUF697); Region: DUF697; cl12064 871585009051 potential frameshift: common BLAST hit: gi|299771762|ref|YP_003733788.1| exonuclease V, gamma chain 871585009052 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 871585009053 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 871585009054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585009055 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 871585009056 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 871585009057 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585009058 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 871585009059 Family description; Region: UvrD_C_2; cl15862 871585009060 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 871585009061 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 871585009062 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 871585009063 16S/18S rRNA binding site [nucleotide binding]; other site 871585009064 S13e-L30e interaction site [polypeptide binding]; other site 871585009065 25S rRNA binding site [nucleotide binding]; other site 871585009066 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 871585009067 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 871585009068 RNase E interface [polypeptide binding]; other site 871585009069 trimer interface [polypeptide binding]; other site 871585009070 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 871585009071 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 871585009072 RNase E interface [polypeptide binding]; other site 871585009073 trimer interface [polypeptide binding]; other site 871585009074 active site 871585009075 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 871585009076 putative nucleic acid binding region [nucleotide binding]; other site 871585009077 G-X-X-G motif; other site 871585009078 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 871585009079 RNA binding site [nucleotide binding]; other site 871585009080 domain interface; other site 871585009081 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 871585009082 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 871585009083 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 871585009084 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 871585009085 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 871585009086 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 871585009087 HSP70 interaction site [polypeptide binding]; other site 871585009088 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 871585009089 substrate binding site [polypeptide binding]; other site 871585009090 dimer interface [polypeptide binding]; other site 871585009091 LysE type translocator; Region: LysE; cl00565 871585009092 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 871585009093 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 871585009094 dimerization interface [polypeptide binding]; other site 871585009095 domain crossover interface; other site 871585009096 redox-dependent activation switch; other site 871585009097 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 871585009098 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 871585009099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009100 primosome assembly protein PriA; Validated; Region: PRK05580 871585009101 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 871585009102 ATP binding site [chemical binding]; other site 871585009103 putative Mg++ binding site [ion binding]; other site 871585009104 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585009105 general secretion pathway protein F; Region: GspF; TIGR02120 871585009106 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 871585009107 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 871585009108 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 871585009109 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 871585009110 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 871585009111 dimer interface [polypeptide binding]; other site 871585009112 putative tRNA-binding site [nucleotide binding]; other site 871585009113 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 871585009114 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 871585009115 putative active site [active] 871585009116 catalytic triad [active] 871585009117 putative dimer interface [polypeptide binding]; other site 871585009118 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 871585009119 Transporter associated domain; Region: CorC_HlyC; cl08393 871585009120 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 871585009121 CPxP motif; other site 871585009122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009123 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 871585009124 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 871585009125 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871585009126 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 871585009127 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 871585009128 aspartate racemase; Region: asp_race; TIGR00035 871585009129 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 871585009130 ferrochelatase; Reviewed; Region: hemH; PRK00035 871585009131 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 871585009132 C-terminal domain interface [polypeptide binding]; other site 871585009133 active site 871585009134 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 871585009135 active site 871585009136 N-terminal domain interface [polypeptide binding]; other site 871585009137 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585009138 Domain of unknown function (DUF329); Region: DUF329; cl01144 871585009139 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 871585009140 Predicted flavoproteins [General function prediction only]; Region: COG2081 871585009141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009143 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 871585009144 CrcB-like protein; Region: CRCB; cl09114 871585009145 HopJ type III effector protein; Region: HopJ; pfam08888 871585009146 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 871585009147 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585009148 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 871585009149 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 871585009150 Flavin binding site [chemical binding]; other site 871585009151 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 871585009152 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 871585009153 Flavin binding site [chemical binding]; other site 871585009154 multidrug efflux protein; Reviewed; Region: PRK01766 871585009155 MatE; Region: MatE; cl10513 871585009156 MatE; Region: MatE; cl10513 871585009157 Protein of unknown function, DUF606; Region: DUF606; cl01273 871585009158 HemN family oxidoreductase; Provisional; Region: PRK05660 871585009159 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 871585009160 FeS/SAM binding site; other site 871585009161 HemN C-terminal domain; Region: HemN_C; pfam06969 871585009162 short chain dehydrogenase; Provisional; Region: PRK12744 871585009163 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 871585009164 NADP binding site [chemical binding]; other site 871585009165 homodimer interface [polypeptide binding]; other site 871585009166 active site 871585009167 substrate binding site [chemical binding]; other site 871585009168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585009169 Helix-turn-helix domains; Region: HTH; cl00088 871585009170 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 871585009171 putative effector binding pocket; other site 871585009172 putative dimerization interface [polypeptide binding]; other site 871585009173 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 871585009174 AMP-binding enzyme; Region: AMP-binding; cl15778 871585009175 ribonuclease E; Reviewed; Region: rne; PRK10811 871585009176 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 871585009177 homodimer interface [polypeptide binding]; other site 871585009178 oligonucleotide binding site [chemical binding]; other site 871585009179 potential frameshift: common BLAST hit: gi|169634491|ref|YP_001708227.1| 23S rRNA pseudouridylate synthase 871585009180 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 871585009181 RNA binding surface [nucleotide binding]; other site 871585009182 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 871585009183 active site 871585009184 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 871585009185 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 871585009186 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 871585009187 motif II; other site 871585009188 Helix-turn-helix domains; Region: HTH; cl00088 871585009189 WYL domain; Region: WYL; cl14852 871585009190 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 871585009191 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 871585009192 putative C-terminal domain interface [polypeptide binding]; other site 871585009193 putative GSH binding site (G-site) [chemical binding]; other site 871585009194 putative dimer interface [polypeptide binding]; other site 871585009195 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 871585009196 dimer interface [polypeptide binding]; other site 871585009197 N-terminal domain interface [polypeptide binding]; other site 871585009198 putative substrate binding pocket (H-site) [chemical binding]; other site 871585009199 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 871585009200 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 871585009201 Helix-turn-helix domains; Region: HTH; cl00088 871585009202 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 871585009203 dimerization interface [polypeptide binding]; other site 871585009204 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 871585009205 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 871585009206 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 871585009207 heme binding site [chemical binding]; other site 871585009208 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 871585009209 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 871585009210 GAF domain; Region: GAF; cl15785 871585009211 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 871585009212 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 871585009213 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 871585009214 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 871585009215 putative active site [active] 871585009216 Ap4A binding site [chemical binding]; other site 871585009217 nudix motif; other site 871585009218 putative metal binding site [ion binding]; other site 871585009219 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 871585009220 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 871585009221 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 871585009222 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 871585009223 SpoOM protein; Region: Spo0M; pfam07070 871585009224 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585009225 Helix-turn-helix domains; Region: HTH; cl00088 871585009226 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 871585009227 dimerization interface [polypeptide binding]; other site 871585009228 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 871585009229 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 871585009230 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 871585009231 substrate binding site [chemical binding]; other site 871585009232 ligand binding site [chemical binding]; other site 871585009233 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 871585009234 substrate binding site [chemical binding]; other site 871585009235 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 871585009236 tartrate dehydrogenase; Provisional; Region: PRK08194 871585009237 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 871585009238 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 871585009239 rRNA binding site [nucleotide binding]; other site 871585009240 predicted 30S ribosome binding site; other site 871585009241 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585009242 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585009243 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585009244 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 871585009245 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 871585009246 dimerization interface 3.5A [polypeptide binding]; other site 871585009247 active site 871585009248 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 871585009249 active site 871585009250 homodimer interface [polypeptide binding]; other site 871585009251 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 871585009252 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 871585009253 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 871585009254 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 871585009255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009256 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 871585009257 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 871585009258 putative catalytic site [active] 871585009259 putative metal binding site [ion binding]; other site 871585009260 putative phosphate binding site [ion binding]; other site 871585009261 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 871585009262 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 871585009263 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 871585009264 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 871585009265 putative ADP-binding pocket [chemical binding]; other site 871585009266 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 871585009267 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 871585009268 putative acyl-acceptor binding pocket; other site 871585009269 LysE type translocator; Region: LysE; cl00565 871585009270 ABC transporter ATPase component; Reviewed; Region: PRK11147 871585009271 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585009272 Walker A/P-loop; other site 871585009273 ATP binding site [chemical binding]; other site 871585009274 Q-loop/lid; other site 871585009275 ABC transporter signature motif; other site 871585009276 Walker B; other site 871585009277 D-loop; other site 871585009278 H-loop/switch region; other site 871585009279 ABC transporter; Region: ABC_tran_2; pfam12848 871585009280 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 871585009281 SlyX; Region: SlyX; cl01090 871585009282 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 871585009283 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 871585009284 putative NAD(P) binding site [chemical binding]; other site 871585009285 dimer interface [polypeptide binding]; other site 871585009286 Helix-turn-helix domains; Region: HTH; cl00088 871585009287 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 871585009288 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 871585009289 active site 871585009290 interdomain interaction site; other site 871585009291 putative metal-binding site [ion binding]; other site 871585009292 nucleotide binding site [chemical binding]; other site 871585009293 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 871585009294 domain I; other site 871585009295 DNA binding groove [nucleotide binding] 871585009296 phosphate binding site [ion binding]; other site 871585009297 domain II; other site 871585009298 domain III; other site 871585009299 nucleotide binding site [chemical binding]; other site 871585009300 catalytic site [active] 871585009301 domain IV; other site 871585009302 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 871585009303 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 871585009304 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 871585009305 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 871585009306 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 871585009307 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 871585009308 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 871585009309 Family description; Region: UvrD_C_2; cl15862 871585009310 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 871585009311 RNA/DNA binding site [nucleotide binding]; other site 871585009312 RRM dimerization site [polypeptide binding]; other site 871585009313 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 871585009314 putative cation:proton antiport protein; Provisional; Region: PRK10669 871585009315 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 871585009316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009317 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 871585009318 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 871585009319 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 871585009320 NAD(P) binding site [chemical binding]; other site 871585009321 catalytic residues [active] 871585009322 Bacterial transcriptional repressor; Region: TetR; pfam13972 871585009323 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 871585009324 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 871585009325 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 871585009326 putative active site [active] 871585009327 putative substrate binding site [chemical binding]; other site 871585009328 putative cosubstrate binding site; other site 871585009329 catalytic site [active] 871585009330 Gram-negative bacterial tonB protein; Region: TonB; cl10048 871585009331 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 871585009332 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 871585009333 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 871585009334 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 871585009335 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 871585009336 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 871585009337 folate binding site [chemical binding]; other site 871585009338 NADP+ binding site [chemical binding]; other site 871585009339 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 871585009340 dimerization interface [polypeptide binding]; other site 871585009341 active site 871585009342 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 871585009343 NRDE protein; Region: NRDE; cl01315 871585009344 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 871585009345 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 871585009346 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 871585009347 twin arginine translocase protein A; Provisional; Region: tatA; PRK00191 871585009348 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 871585009349 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 871585009350 Membrane transport protein; Region: Mem_trans; cl09117 871585009351 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 871585009352 active site 871585009353 dimerization interface [polypeptide binding]; other site 871585009354 Sel1 repeat; Region: Sel1; cl02723 871585009355 Sel1 repeat; Region: Sel1; cl02723 871585009356 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 871585009357 S-adenosylmethionine binding site [chemical binding]; other site 871585009358 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 871585009359 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 871585009360 2-isopropylmalate synthase; Validated; Region: PRK03739 871585009361 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 871585009362 active site 871585009363 catalytic residues [active] 871585009364 metal binding site [ion binding]; metal-binding site 871585009365 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 871585009366 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 871585009367 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 871585009368 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 871585009369 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 871585009370 N-terminal plug; other site 871585009371 ligand-binding site [chemical binding]; other site 871585009372 trigger factor; Provisional; Region: tig; PRK01490 871585009373 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 871585009374 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 871585009375 Clp protease; Region: CLP_protease; pfam00574 871585009376 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 871585009377 oligomer interface [polypeptide binding]; other site 871585009378 active site residues [active] 871585009379 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 871585009380 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 871585009381 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 871585009382 Walker A motif; other site 871585009383 ATP binding site [chemical binding]; other site 871585009384 Walker B motif; other site 871585009385 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 871585009386 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 871585009387 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 871585009388 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 871585009389 Fumarase C-terminus; Region: Fumerase_C; cl00795 871585009390 phosphate acetyltransferase; Reviewed; Region: PRK05632 871585009391 DRTGG domain; Region: DRTGG; cl12147 871585009392 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 871585009393 Acetokinase family; Region: Acetate_kinase; cl01029 871585009394 propionate/acetate kinase; Provisional; Region: PRK12379 871585009395 Dehydratase family; Region: ILVD_EDD; cl00340 871585009396 6-phosphogluconate dehydratase; Region: edd; TIGR01196 871585009397 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 871585009398 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 871585009399 active site 871585009400 intersubunit interface [polypeptide binding]; other site 871585009401 catalytic residue [active] 871585009402 GntP family permease; Region: GntP_permease; pfam02447 871585009403 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 871585009404 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 871585009405 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 871585009406 ATP-binding site [chemical binding]; other site 871585009407 Gluconate-6-phosphate binding site [chemical binding]; other site 871585009408 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 871585009409 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 871585009410 tetrameric interface [polypeptide binding]; other site 871585009411 activator binding site; other site 871585009412 NADP binding site [chemical binding]; other site 871585009413 substrate binding site [chemical binding]; other site 871585009414 catalytic residues [active] 871585009415 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 871585009416 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 871585009417 putative catalytic cysteine [active] 871585009418 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871585009419 Leucine carboxyl methyltransferase; Region: LCM; cl01306 871585009420 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 871585009421 carboxy-terminal protease; Provisional; Region: PRK11186 871585009422 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 871585009423 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 871585009424 protein binding site [polypeptide binding]; other site 871585009425 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 871585009426 Catalytic dyad [active] 871585009427 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 871585009428 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 871585009429 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 871585009430 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 871585009431 active site 871585009432 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 871585009433 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 871585009434 active site 871585009435 multimer interface [polypeptide binding]; other site 871585009436 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 871585009437 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 871585009438 FeS/SAM binding site; other site 871585009439 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 871585009440 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 871585009441 TPR motif; other site 871585009442 binding surface 871585009443 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 871585009444 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 871585009445 potential frameshift: common BLAST hit: gi|215484684|ref|YP_002326919.1| 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase 871585009446 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 871585009447 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 871585009448 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 871585009449 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 871585009450 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 871585009451 dimer interface [polypeptide binding]; other site 871585009452 motif 1; other site 871585009453 active site 871585009454 motif 2; other site 871585009455 motif 3; other site 871585009456 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 871585009457 anticodon binding site; other site 871585009458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 871585009459 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 871585009460 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 871585009461 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 871585009462 Trp docking motif [polypeptide binding]; other site 871585009463 active site 871585009464 GTP-binding protein Der; Reviewed; Region: PRK00093 871585009465 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 871585009466 G1 box; other site 871585009467 GTP/Mg2+ binding site [chemical binding]; other site 871585009468 Switch I region; other site 871585009469 G2 box; other site 871585009470 Switch II region; other site 871585009471 G3 box; other site 871585009472 G4 box; other site 871585009473 G5 box; other site 871585009474 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 871585009475 G1 box; other site 871585009476 GTP/Mg2+ binding site [chemical binding]; other site 871585009477 Switch I region; other site 871585009478 G2 box; other site 871585009479 G3 box; other site 871585009480 Switch II region; other site 871585009481 G4 box; other site 871585009482 G5 box; other site 871585009483 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 871585009484 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 871585009485 putative acyl-acceptor binding pocket; other site 871585009486 Phosphopantetheine attachment site; Region: PP-binding; cl09936 871585009487 Phosphopantetheine attachment site; Region: PP-binding; cl09936 871585009488 Predicted membrane protein [Function unknown]; Region: COG4648 871585009489 AMP-binding enzyme; Region: AMP-binding; cl15778 871585009490 peptide synthase; Provisional; Region: PRK12467 871585009491 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 871585009492 active site 2 [active] 871585009493 active site 1 [active] 871585009494 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 871585009495 Ligand binding site; other site 871585009496 Putative Catalytic site; other site 871585009497 DXD motif; other site 871585009498 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 871585009499 putative acyl-acceptor binding pocket; other site 871585009500 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 871585009501 active sites [active] 871585009502 tetramer interface [polypeptide binding]; other site 871585009503 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 871585009504 active site 871585009505 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 871585009506 Predicted exporter [General function prediction only]; Region: COG4258 871585009507 Predicted exporter [General function prediction only]; Region: COG4258 871585009508 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 871585009509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009510 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 871585009511 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 871585009512 dimer interface [polypeptide binding]; other site 871585009513 active site 871585009514 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 871585009515 putative active site 1 [active] 871585009516 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 871585009517 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 871585009518 NAD(P) binding site [chemical binding]; other site 871585009519 homotetramer interface [polypeptide binding]; other site 871585009520 homodimer interface [polypeptide binding]; other site 871585009521 active site 871585009522 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 871585009523 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 871585009524 dimer interface [polypeptide binding]; other site 871585009525 active site 871585009526 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 871585009527 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 871585009528 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 871585009529 SecA binding site; other site 871585009530 Preprotein binding site; other site 871585009531 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 871585009532 GSH binding site [chemical binding]; other site 871585009533 catalytic residues [active] 871585009534 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 871585009535 active site residue [active] 871585009536 GTPase RsgA; Reviewed; Region: PRK12288 871585009537 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 871585009538 RNA binding site [nucleotide binding]; other site 871585009539 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 871585009540 GTPase/Zn-binding domain interface [polypeptide binding]; other site 871585009541 GTP/Mg2+ binding site [chemical binding]; other site 871585009542 G4 box; other site 871585009543 G5 box; other site 871585009544 G1 box; other site 871585009545 Switch I region; other site 871585009546 G2 box; other site 871585009547 G3 box; other site 871585009548 Switch II region; other site 871585009549 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 871585009550 catalytic site [active] 871585009551 putative active site [active] 871585009552 putative substrate binding site [chemical binding]; other site 871585009553 dimer interface [polypeptide binding]; other site 871585009554 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 871585009555 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 871585009556 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 871585009557 NAD binding site [chemical binding]; other site 871585009558 homotetramer interface [polypeptide binding]; other site 871585009559 homodimer interface [polypeptide binding]; other site 871585009560 substrate binding site [chemical binding]; other site 871585009561 active site 871585009562 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 871585009563 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 871585009564 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 871585009565 Walker A/P-loop; other site 871585009566 ATP binding site [chemical binding]; other site 871585009567 Q-loop/lid; other site 871585009568 ABC transporter signature motif; other site 871585009569 Walker B; other site 871585009570 D-loop; other site 871585009571 H-loop/switch region; other site 871585009572 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 871585009573 FtsX-like permease family; Region: FtsX; cl15850 871585009574 macrolide transporter subunit MacA; Provisional; Region: PRK11578 871585009575 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 871585009576 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 871585009577 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 871585009578 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 871585009579 Lipopolysaccharide-assembly; Region: LptE; cl01125 871585009580 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 871585009581 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 871585009582 HIGH motif; other site 871585009583 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 871585009584 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 871585009585 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 871585009586 active site 871585009587 KMSKS motif; other site 871585009588 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 871585009589 tRNA binding surface [nucleotide binding]; other site 871585009590 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 871585009591 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 871585009592 PYR/PP interface [polypeptide binding]; other site 871585009593 dimer interface [polypeptide binding]; other site 871585009594 TPP binding site [chemical binding]; other site 871585009595 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 871585009596 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 871585009597 TPP-binding site [chemical binding]; other site 871585009598 dimer interface [polypeptide binding]; other site 871585009599 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 871585009600 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 871585009601 putative valine binding site [chemical binding]; other site 871585009602 dimer interface [polypeptide binding]; other site 871585009603 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 871585009604 ketol-acid reductoisomerase; Provisional; Region: PRK05479 871585009605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009606 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 871585009607 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 871585009608 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871585009609 metal binding site [ion binding]; metal-binding site 871585009610 active site 871585009611 I-site; other site 871585009612 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 871585009613 Helix-turn-helix domains; Region: HTH; cl00088 871585009614 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 871585009615 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 871585009616 G1 box; other site 871585009617 putative GEF interaction site [polypeptide binding]; other site 871585009618 GTP/Mg2+ binding site [chemical binding]; other site 871585009619 Switch I region; other site 871585009620 G2 box; other site 871585009621 G3 box; other site 871585009622 Switch II region; other site 871585009623 G4 box; other site 871585009624 G5 box; other site 871585009625 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 871585009626 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 871585009627 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 871585009628 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 871585009629 active site 871585009630 aconitate hydratase; Validated; Region: PRK09277 871585009631 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 871585009632 substrate binding site [chemical binding]; other site 871585009633 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 871585009634 ligand binding site [chemical binding]; other site 871585009635 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 871585009636 substrate binding site [chemical binding]; other site 871585009637 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 871585009638 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 871585009639 putative ATP binding site [chemical binding]; other site 871585009640 putative substrate interface [chemical binding]; other site 871585009641 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585009642 Helix-turn-helix domains; Region: HTH; cl00088 871585009643 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 871585009644 dimerization interface [polypeptide binding]; other site 871585009645 substrate binding pocket [chemical binding]; other site 871585009646 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 871585009647 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 871585009648 FMN binding site [chemical binding]; other site 871585009649 active site 871585009650 catalytic residues [active] 871585009651 substrate binding site [chemical binding]; other site 871585009652 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 871585009653 putative substrate translocation pore; other site 871585009654 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 871585009655 homotrimer interaction site [polypeptide binding]; other site 871585009656 putative active site [active] 871585009657 EamA-like transporter family; Region: EamA; cl01037 871585009658 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871585009659 EamA-like transporter family; Region: EamA; cl01037 871585009660 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 871585009661 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 871585009662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009663 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 871585009664 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 871585009665 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 871585009666 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 871585009667 putative NAD(P) binding site [chemical binding]; other site 871585009668 active site 871585009669 Oligomerisation domain; Region: Oligomerisation; cl00519 871585009670 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 871585009671 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 871585009672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009673 enoyl-CoA hydratase; Provisional; Region: PRK07509 871585009674 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 871585009675 substrate binding site [chemical binding]; other site 871585009676 oxyanion hole (OAH) forming residues; other site 871585009677 trimer interface [polypeptide binding]; other site 871585009678 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 871585009679 dimer interface [polypeptide binding]; other site 871585009680 phosphorylation site [posttranslational modification] 871585009681 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 871585009682 ATP binding site [chemical binding]; other site 871585009683 Mg2+ binding site [ion binding]; other site 871585009684 G-X-G motif; other site 871585009685 Response regulator receiver domain; Region: Response_reg; pfam00072 871585009686 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 871585009687 active site 871585009688 phosphorylation site [posttranslational modification] 871585009689 intermolecular recognition site; other site 871585009690 dimerization interface [polypeptide binding]; other site 871585009691 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 871585009692 cysteine synthase B; Region: cysM; TIGR01138 871585009693 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 871585009694 dimer interface [polypeptide binding]; other site 871585009695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585009696 catalytic residue [active] 871585009697 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 871585009698 active site 871585009699 catalytic site [active] 871585009700 substrate binding site [chemical binding]; other site 871585009701 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 871585009702 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 871585009703 TRAM domain; Region: TRAM; cl01282 871585009704 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 871585009705 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 871585009706 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 871585009707 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 871585009708 synthetase active site [active] 871585009709 NTP binding site [chemical binding]; other site 871585009710 metal binding site [ion binding]; metal-binding site 871585009711 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 871585009712 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 871585009713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009714 short chain dehydrogenase; Validated; Region: PRK07069 871585009715 NAD(P) binding site [chemical binding]; other site 871585009716 active site 871585009717 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 871585009718 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 871585009719 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 871585009720 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 871585009721 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 871585009722 poly(A) polymerase; Region: pcnB; TIGR01942 871585009723 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 871585009724 active site 871585009725 NTP binding site [chemical binding]; other site 871585009726 metal binding triad [ion binding]; metal-binding site 871585009727 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 871585009728 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 871585009729 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 871585009730 catalytic center binding site [active] 871585009731 ATP binding site [chemical binding]; other site 871585009732 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 871585009733 oligomerization interface [polypeptide binding]; other site 871585009734 active site 871585009735 metal binding site [ion binding]; metal-binding site 871585009736 pantoate--beta-alanine ligase; Region: panC; TIGR00018 871585009737 Pantoate-beta-alanine ligase; Region: PanC; cd00560 871585009738 active site 871585009739 ATP-binding site [chemical binding]; other site 871585009740 pantoate-binding site; other site 871585009741 HXXH motif; other site 871585009742 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 871585009743 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 871585009744 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 871585009745 dimerization domain swap beta strand [polypeptide binding]; other site 871585009746 regulatory protein interface [polypeptide binding]; other site 871585009747 active site 871585009748 regulatory phosphorylation site [posttranslational modification]; other site 871585009749 Protein of unknown function (DUF615); Region: DUF615; cl01147 871585009750 acyl-CoA synthetase; Validated; Region: PRK08162 871585009751 AMP-binding enzyme; Region: AMP-binding; cl15778 871585009752 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871585009753 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 871585009754 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 871585009755 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 871585009756 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 871585009757 active site 871585009758 dimer interface [polypeptide binding]; other site 871585009759 motif 1; other site 871585009760 motif 2; other site 871585009761 motif 3; other site 871585009762 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 871585009763 anticodon binding site; other site 871585009764 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 871585009765 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 871585009766 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 871585009767 C-terminal domain interface [polypeptide binding]; other site 871585009768 GSH binding site (G-site) [chemical binding]; other site 871585009769 dimer interface [polypeptide binding]; other site 871585009770 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 871585009771 N-terminal domain interface [polypeptide binding]; other site 871585009772 putative dimer interface [polypeptide binding]; other site 871585009773 active site 871585009774 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 871585009775 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 871585009776 putative substrate translocation pore; other site 871585009777 H+ Antiporter protein; Region: 2A0121; TIGR00900 871585009778 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 871585009779 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 871585009780 23S rRNA binding site [nucleotide binding]; other site 871585009781 L21 binding site [polypeptide binding]; other site 871585009782 L13 binding site [polypeptide binding]; other site 871585009783 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 871585009784 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 871585009785 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 871585009786 dimer interface [polypeptide binding]; other site 871585009787 motif 1; other site 871585009788 active site 871585009789 motif 2; other site 871585009790 motif 3; other site 871585009791 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 871585009792 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 871585009793 putative tRNA-binding site [nucleotide binding]; other site 871585009794 B3/4 domain; Region: B3_4; cl11458 871585009795 tRNA synthetase B5 domain; Region: B5; cl08394 871585009796 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 871585009797 dimer interface [polypeptide binding]; other site 871585009798 motif 1; other site 871585009799 motif 3; other site 871585009800 motif 2; other site 871585009801 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 871585009802 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 871585009803 IHF dimer interface [polypeptide binding]; other site 871585009804 IHF - DNA interface [nucleotide binding]; other site 871585009805 transcription termination factor Rho; Provisional; Region: rho; PRK09376 871585009806 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 871585009807 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 871585009808 RNA binding site [nucleotide binding]; other site 871585009809 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 871585009810 multimer interface [polypeptide binding]; other site 871585009811 Walker A motif; other site 871585009812 ATP binding site [chemical binding]; other site 871585009813 Walker B motif; other site 871585009814 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 871585009815 catalytic residues [active] 871585009816 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 871585009817 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 871585009818 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 871585009819 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 871585009820 TilS substrate binding domain; Region: TilS; pfam09179 871585009821 B3/4 domain; Region: B3_4; cl11458 871585009822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009823 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 871585009824 YGGT family; Region: YGGT; cl00508 871585009825 DNA polymerase I; Provisional; Region: PRK05755 871585009826 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 871585009827 active site 871585009828 metal binding site 1 [ion binding]; metal-binding site 871585009829 putative 5' ssDNA interaction site; other site 871585009830 metal binding site 3; metal-binding site 871585009831 metal binding site 2 [ion binding]; metal-binding site 871585009832 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 871585009833 putative DNA binding site [nucleotide binding]; other site 871585009834 putative metal binding site [ion binding]; other site 871585009835 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 871585009836 active site 871585009837 catalytic site [active] 871585009838 substrate binding site [chemical binding]; other site 871585009839 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 871585009840 active site 871585009841 DNA binding site [nucleotide binding] 871585009842 catalytic site [active] 871585009843 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 871585009844 Mechanosensitive ion channel; Region: MS_channel; pfam00924 871585009845 Protein of unknown function (DUF432); Region: DUF432; cl01027 871585009846 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 871585009847 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 871585009848 Walker A motif; other site 871585009849 ATP binding site [chemical binding]; other site 871585009850 Walker B motif; other site 871585009851 OsmC-like protein; Region: OsmC; cl00767 871585009852 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 871585009853 Helix-turn-helix domains; Region: HTH; cl00088 871585009854 Predicted amidohydrolase [General function prediction only]; Region: COG0388 871585009855 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 871585009856 putative active site [active] 871585009857 catalytic triad [active] 871585009858 dimer interface [polypeptide binding]; other site 871585009859 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 871585009860 anti sigma factor interaction site; other site 871585009861 regulatory phosphorylation site [posttranslational modification]; other site 871585009862 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 871585009863 VacJ like lipoprotein; Region: VacJ; cl01073 871585009864 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 871585009865 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 871585009866 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 871585009867 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 871585009868 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 871585009869 30S subunit binding site; other site 871585009870 BolA-like protein; Region: BolA; cl00386 871585009871 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 871585009872 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 871585009873 hinge; other site 871585009874 active site 871585009875 ATP phosphoribosyltransferase; Region: HisG; cl15266 871585009876 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 871585009877 histidinol dehydrogenase; Region: hisD; TIGR00069 871585009878 NAD binding site [chemical binding]; other site 871585009879 dimerization interface [polypeptide binding]; other site 871585009880 product binding site; other site 871585009881 substrate binding site [chemical binding]; other site 871585009882 zinc binding site [ion binding]; other site 871585009883 catalytic residues [active] 871585009884 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 871585009885 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 871585009886 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871585009887 homodimer interface [polypeptide binding]; other site 871585009888 catalytic residue [active] 871585009889 anthranilate synthase component I; Provisional; Region: PRK13570 871585009890 chorismate binding enzyme; Region: Chorismate_bind; cl10555 871585009891 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 871585009892 putative active site [active] 871585009893 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 871585009894 potential frameshift: common BLAST hit: gi|299771490|ref|YP_003733516.1| FilE 871585009895 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 871585009896 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 871585009897 nudix motif; other site 871585009898 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 871585009899 putative active site [active] 871585009900 putative CoA binding site [chemical binding]; other site 871585009901 nudix motif; other site 871585009902 metal binding site [ion binding]; metal-binding site 871585009903 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 871585009904 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 871585009905 trimer interface [polypeptide binding]; other site 871585009906 putative metal binding site [ion binding]; other site 871585009907 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 871585009908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009909 Peptidase C13 family; Region: Peptidase_C13; cl02159 871585009910 Predicted esterase [General function prediction only]; Region: COG0627 871585009911 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 871585009912 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 871585009913 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 871585009914 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 871585009915 substrate binding site [chemical binding]; other site 871585009916 hexamer interface [polypeptide binding]; other site 871585009917 metal binding site [ion binding]; metal-binding site 871585009918 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 871585009919 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 871585009920 active site 871585009921 motif I; other site 871585009922 motif II; other site 871585009923 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 871585009924 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 871585009925 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 871585009926 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 871585009927 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 871585009928 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 871585009929 Cation efflux family; Region: Cation_efflux; cl00316 871585009930 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 871585009931 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 871585009932 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 871585009933 DNA binding site [nucleotide binding] 871585009934 active site 871585009935 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 871585009936 heterotetramer interface [polypeptide binding]; other site 871585009937 active site pocket [active] 871585009938 cleavage site 871585009939 Quinolinate synthetase A protein; Region: NadA; cl00420 871585009940 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 871585009941 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 871585009942 active site 871585009943 purine riboside binding site [chemical binding]; other site 871585009944 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 871585009945 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 871585009946 putative NAD(P) binding site [chemical binding]; other site 871585009947 catalytic Zn binding site [ion binding]; other site 871585009948 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 871585009949 Helix-turn-helix domains; Region: HTH; cl00088 871585009950 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 871585009951 dimerization interface [polypeptide binding]; other site 871585009952 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 871585009953 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871585009954 FAD binding site [chemical binding]; other site 871585009955 substrate binding pocket [chemical binding]; other site 871585009956 catalytic base [active] 871585009957 benzoate transport; Region: 2A0115; TIGR00895 871585009958 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 871585009959 putative substrate translocation pore; other site 871585009960 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 871585009961 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 871585009962 CoA-transferase family III; Region: CoA_transf_3; pfam02515 871585009963 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 871585009964 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585009965 Helix-turn-helix domains; Region: HTH; cl00088 871585009966 HPP family; Region: HPP; pfam04982 871585009967 tricarballylate utilization protein B; Provisional; Region: PRK15033 871585009968 tricarballylate dehydrogenase; Validated; Region: PRK08274 871585009969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871585009970 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 871585009971 Helix-turn-helix domains; Region: HTH; cl00088 871585009972 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 871585009973 putative dimerization interface [polypeptide binding]; other site 871585009974 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 871585009975 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 871585009976 citrate-proton symporter; Provisional; Region: PRK15075 871585009977 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 871585009978 putative substrate translocation pore; other site 871585009979 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871585009980 Helix-turn-helix domains; Region: HTH; cl00088 871585009981 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 871585009982 putative dimerization interface [polypeptide binding]; other site 871585009983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 871585009984 NMT1-like family; Region: NMT1_2; cl15260 871585009985 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 871585009986 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 871585009987 Putative ammonia monooxygenase; Region: AmoA; pfam05145 871585009988 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 871585009989 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 871585009990 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 871585009991 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 871585009992 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 871585009993 metal binding site [ion binding]; metal-binding site 871585009994 putative dimer interface [polypeptide binding]; other site 871585009995 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 871585009996 SurA N-terminal domain; Region: SurA_N_3; cl07813 871585009997 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871585009998 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871585009999 Fatty acid desaturase; Region: FA_desaturase; pfam00487 871585010000 LysE type translocator; Region: LysE; cl00565 871585010001 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 871585010002 Helix-turn-helix domains; Region: HTH; cl00088 871585010003 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 871585010004 dimerization interface [polypeptide binding]; other site 871585010005 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 871585010006 methionine synthase; Provisional; Region: PRK01207 871585010007 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 871585010008 substrate binding site [chemical binding]; other site 871585010009 THF binding site; other site 871585010010 zinc-binding site [ion binding]; other site 871585010011 Flavin Reductases; Region: FlaRed; cl00801 871585010012 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871585010013 Helix-turn-helix domains; Region: HTH; cl00088 871585010014 potential frameshift: common BLAST hit: gi|169632875|ref|YP_001706611.1| outer membrane efflux protein, type I secretion protein 871585010015 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 871585010016 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 871585010017 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 871585010018 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 871585010019 putative active site [active] 871585010020 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 871585010021 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 871585010022 Walker A/P-loop; other site 871585010023 ATP binding site [chemical binding]; other site 871585010024 Q-loop/lid; other site 871585010025 ABC transporter signature motif; other site 871585010026 Walker B; other site 871585010027 D-loop; other site 871585010028 H-loop/switch region; other site 871585010029 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 871585010030 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 871585010031 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 871585010032 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532