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NCBI: 02-MAR-2017

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_RS10430 [old locus tag: NWMN_1815 ]
  • pan locus tag?: SAUPAN004862000
  • symbol: NWMN_RS10430
  • pan gene symbol?: —
  • synonym:
  • product: radical SAM/CxCxxxxC motif protein YfkAB

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_RS10430 [old locus tag: NWMN_1815 ]
  • symbol: NWMN_RS10430
  • product: radical SAM/CxCxxxxC motif protein YfkAB
  • replicon: chromosome
  • strand: +
  • coordinates: 2023218..2024363
  • length: 1146
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

  • Location: NC_009641 (2023218..2024363) NCBI
  • BioCyc:
  • MicrobesOnline: see NWMN_1815

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    ATGCGTAATAACAAGCCTAAAATAAGAATTCATAATGACCCATGGGAAGCATATAACGAT
    GTTAAAGAACATGGCCAATTAACTTTAAGTAACATCGAATTTACAACTACAAATCTTTGT
    AATATGCGTTGTAGCCACTGTGCAGTTGGTTATACTTTACAAACTGTCGACCCCGAGCCT
    TTAGATATGGACTTAATTTATCGTAGACTTGATGAAATTCCAAATCTGCGAACGATGTCT
    ATTACAGGTGGCGAACCAATGTTTTCTAAAAAGTCTATTAGAAATGTTGTTAAACCTCTA
    TTAAAGTATGCACATCATCGAGGTATATATACACAAATGAATTCAAACCTAACATTGCCT
    CAAGATCGTTATTTAGATATTGCTGAATATATCGATGTTATGCATATCTCACACAACTGG
    GGAACAACTGATGAATTCGCAAATGTTGGCTTTGGCGCAATGAAGAAGCAACCACCGTTA
    AAAGCTAAGTTAAAATTATATGAACAAATGATTTCGAATGCACGTACATTATCAGAACAA
    GGAATGTTTGTATCTGCGGAAACAATGCTCAATCAAAGTACGCTACCACATTTACGAAAA
    ATACATCAAGAAGTCGTTCATGATATGAAATGTAGCAGACACGAGATTCACCCTATGTAT
    CCAGCTGACTTTGCAAGTCAATTAAATGTGTTAACTCTAGCGGAAATGAAAAAGACAATT
    CATGATATATTGGATTTCAGAGATGAAGATATTTGGATGTTATTTGGTACTTTGCCTGTG
    TTTCCATGCTTAAAGGATGATGAAGATCAAAAGTTACTATCACGTTTAAGAAATGCTAAA
    AATGTAACGACTAGAAATGACCCGGATGGCCGTAGTCGTTTAAATGTCAATGTATTTACA
    GGTAATGTAATCGTAACTGATTTCGGAGATGAAACAGGTACAATTTCGAATATACAAAAA
    GATAAATTAACAGATGTATTTGATAAATGGTTATCCTCTGATCTTGCTAAATCATTAAAT
    TGTCATTGTTCCGAGTTTAGTTGTTTAGGACCAAATGTTCTTGTTAAAAATATGTACTAT
    CCGAATATGGATTTTAAAGATAATGAGCGTCATATGCACAAACAACCACAAATTATACAA
    TTTTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1146

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_RS10430 [old locus tag: NWMN_1815 ]
  • symbol: NWMN_RS10430
  • description: radical SAM/CxCxxxxC motif protein YfkAB
  • length: 381
  • theoretical pI: 7.08482
  • theoretical MW: 44065.2
  • GRAVY: -0.525459

⊟Function[edit | edit source]

  • TIGRFAM:
    Unknown function Enzymes of unknown specificity radical SAM/CxCxxxxC motif protein YfkAB (TIGR04478; HMM-score: 615)
    and 38 more
    Genetic information processing Protein synthesis tRNA and rRNA base modification putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE (TIGR03963; HMM-score: 27.6)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin putative heme d1 biosynthesis radical SAM protein NirJ2 (TIGR04055; EC 1.3.99.-; HMM-score: 27.3)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin putative heme d1 biosynthesis radical SAM protein NirJ1 (TIGR04054; HMM-score: 24.7)
    radical SAM/Cys-rich domain protein (TIGR04167; HMM-score: 24.6)
    tungsten cofactor oxidoreducase radical SAM maturase (TIGR04317; HMM-score: 24.6)
    Cellular processes Cellular processes Toxin production and resistance Cys-rich peptide radical SAM maturase CcpM (TIGR04068; HMM-score: 24.5)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Molybdopterin molybdenum cofactor biosynthesis protein A (TIGR02666; HMM-score: 23.4)
    Unknown function Enzymes of unknown specificity radical SAM protein, BA_1875 family (TIGR04053; HMM-score: 23.4)
    hopanoid biosynthesis associated radical SAM protein HpnH (TIGR03470; HMM-score: 23.3)
    His-Xaa-Ser system radical SAM maturase HxsC (TIGR03977; HMM-score: 22.4)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin heme b synthase (TIGR04545; EC 1.3.99.-; HMM-score: 21.8)
    pseudo-rSAM protein/SPASM domain protein (TIGR04347; HMM-score: 20.3)
    Genetic information processing Protein synthesis tRNA and rRNA base modification 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE (TIGR03365; HMM-score: 19.6)
    His-Xaa-Ser system radical SAM maturase HxsB (TIGR03978; HMM-score: 19.2)
    SynChlorMet cassette radical SAM/SPASM protein ScmF (TIGR04251; HMM-score: 18.8)
    Unknown function Enzymes of unknown specificity mycofactocin radical SAM maturase (TIGR03962; HMM-score: 18.6)
    putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE (TIGR04349; HMM-score: 18)
    Genetic information processing Protein fate Protein modification and repair anaerobic ribonucleoside-triphosphate reductase activating protein (TIGR02491; EC 1.97.1.-; HMM-score: 17.2)
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism anaerobic ribonucleoside-triphosphate reductase activating protein (TIGR02491; EC 1.97.1.-; HMM-score: 17.2)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin heme d1 biosynthesis radical SAM protein NirJ (TIGR04051; HMM-score: 17.2)
    radical SAM/SPASM domain protein maturase (TIGR04463; HMM-score: 17.1)
    Genetic information processing Protein fate Protein modification and repair pyruvate formate-lyase 1-activating enzyme (TIGR02493; EC 1.97.1.4; HMM-score: 16.7)
    Metabolism Energy metabolism Anaerobic pyruvate formate-lyase 1-activating enzyme (TIGR02493; EC 1.97.1.4; HMM-score: 16.7)
    radical SAM protein, TatD family-associated (TIGR04038; HMM-score: 16.7)
    Genetic information processing Protein fate Protein modification and repair anaerobic ribonucleoside-triphosphate reductase activating protein (TIGR02495; EC 1.97.-.-; HMM-score: 16.6)
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism anaerobic ribonucleoside-triphosphate reductase activating protein (TIGR02495; EC 1.97.-.-; HMM-score: 16.6)
    Unknown function Enzymes of unknown specificity archaeal radical SAM protein, PTO1314 family (TIGR03961; HMM-score: 16.4)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Molybdopterin probable molybdenum cofactor biosynthesis protein A (TIGR02668; HMM-score: 16.2)
    SynChlorMet cassette radical SAM/SPASM protein ScmE (TIGR04250; HMM-score: 16)
    Signal transduction Regulatory functions Protein interactions peptide modification radical SAM enzyme, YydG family (TIGR04078; HMM-score: 15.7)
    putative geopeptide radical SAM maturase (TIGR04280; HMM-score: 15.5)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin 12,18-didecarboxysiroheme deacetylase (TIGR04546; HMM-score: 15.5)
    radical SAM peptide maturase, GG-Bacteroidales family (TIGR04148; HMM-score: 14.9)
    glycyl-radical enzyme activating protein (TIGR02494; EC 1.97.1.-; HMM-score: 14.4)
    GeoRSP system radical SAM/SPASM protein (TIGR04303; HMM-score: 14.3)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit (TIGR03551; EC 2.5.1.77; HMM-score: 13.3)
    Cellular processes Cellular processes Adaptations to atypical conditions glutamate 2,3-aminomutase (TIGR04368; EC 5.4.3.9; HMM-score: 13.2)
    putative peptide-modifying radical SAM enzyme, AF0577 family (TIGR04084; HMM-score: 12.9)
  • TheSEED: data available for COL, N315, NCTC8325, USA300_FPR3757
  • PFAM:
    no clan defined YfkB; YfkB-like domain (PF08756; HMM-score: 250.8)
    and 3 more
    TIM_barrel (CL0036) Radical_SAM; Radical SAM superfamily (PF04055; HMM-score: 44.4)
    4Fe-4S (CL0344) Fer4_14; 4Fe-4S single cluster domain (PF13394; HMM-score: 24.5)
    Fer4_12; 4Fe-4S single cluster domain (PF13353; HMM-score: 23.8)

⊟Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • Internal Helices: 0
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.132425
    • TAT(Tat/SPI): 0.000827
    • LIPO(Sec/SPII): 0.007066
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MRNNKPKIRIHNDPWEAYNDVKEHGQLTLSNIEFTTTNLCNMRCSHCAVGYTLQTVDPEPLDMDLIYRRLDEIPNLRTMSITGGEPMFSKKSIRNVVKPLLKYAHHRGIYTQMNSNLTLPQDRYLDIAEYIDVMHISHNWGTTDEFANVGFGAMKKQPPLKAKLKLYEQMISNARTLSEQGMFVSAETMLNQSTLPHLRKIHQEVVHDMKCSRHEIHPMYPADFASQLNVLTLAEMKKTIHDILDFRDEDIWMLFGTLPVFPCLKDDEDQKLLSRLRNAKNVTTRNDPDGRSRLNVNVFTGNVIVTDFGDETGTISNIQKDKLTDVFDKWLSSDLAKSLNCHCSEFSCLGPNVLVKNMYYPNMDFKDNERHMHKQPQIIQF

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for NCTC8325
  • protein localization:
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription pattern[edit | edit source]

⊟Protein synthesis (provided by Aureolib)[edit | edit source]

⊟Protein stability[edit | edit source]

  • half-life: no data available

⊟Biological Material[edit | edit source]

⊟Mutants[edit | edit source]

⊟Expression vector[edit | edit source]

⊟lacZ fusion[edit | edit source]

⊟GFP fusion[edit | edit source]

⊟two-hybrid system[edit | edit source]

⊟FLAG-tag construct[edit | edit source]

⊟Antibody[edit | edit source]

⊟Other Information[edit | edit source]

You are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

⊟Relevant publications[edit | edit source]

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