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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_000105
  • pan locus tag?: SAUPAN000992000
  • symbol: capN
  • pan gene symbol?: capN
  • synonym:
  • product: capsular polysaccharide type 5/8 biosynthesis epimerase CapN

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_000105
  • symbol: capN
  • product: capsular polysaccharide type 5/8 biosynthesis epimerase CapN
  • replicon: chromosome
  • strand: +
  • coordinates: 121906..122793
  • length: 888
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

  • Gene ID:
  • RefSeq:
  • BioCyc:
  • MicrobesOnline:

⊟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
    ATGAGAAAAAATATTTTAATTACAGGCGTACATGGATATATCGGTAATGCTTTAAAAGAT
    AAGCTTATTGAACAAGGACATCAAGTAGATCAAATTAATGTTAGGAATCAATTATGGAAG
    TCGACCTCGTTCAAAGATTATGATGTTTTAATTCATACAGCAGCTTTGGTTCACAACAAT
    TCACCTCAAGCAAGGCTATCTGATTATATGCAAGTGAATATGTTGCTTACGAAACAATTG
    GCACAAAAGGCTAAAGCTGAAGACGTTAAACAATTTATTTTTATGAGTACTATGGCAGTT
    TATGGAAAAGAAGGTCAGGTTGGTAAATCAGATCAAATTGATACACAAACACCAATGAAC
    CCTACGACCAACTATGGTATTTCCAAAAAGTTCGCTGAACAAGCCTTACAAGAGTTGATT
    AGTGATTCGTTTAAAGTAGCAATTGTGAGACCACCAATGATTTATGGTGCACATTGCCCA
    GGAAATTTCCAACGGTTAATGCAATTGTCAAAGCGATTGCCAATCATTCCCAATATTAAC
    AATCAGCGCAGTGCATTATATATTAAACATCTGACAGCATTTATTGATCAATTAATATCA
    TTAGAAGTGACAGGTGTGTACCATCCTCAAGATAGTTTTTACTTTGATACATCGTCAGTA
    ATGTATGAAATACGTCGCCAATCACATCGTAAAACGGTATTGATCAACATGCCTTCAATG
    CTAAATAAGTATTTTAATAAGTTGTCGGTCTTTAGAAAATTATTCGGCAATTTAACATAC
    AGCAATACGTTATATGAAAATAATAATGCGCTTGAAGTTATTCCTGGAAAAATGTCACTT
    GTTATTGCGGACATCATGGATGAAACGACAACCAAAGATAAGGCATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    888

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_000105
  • symbol: CapN
  • description: capsular polysaccharide type 5/8 biosynthesis epimerase CapN
  • length: 295
  • theoretical pI: 9.85627
  • theoretical MW: 33661.7
  • GRAVY: -0.311525

⊟Function[edit | edit source]

  • TIGRFAM:
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides dTDP-4-dehydrorhamnose reductase (TIGR01214; EC 1.1.1.133; HMM-score: 66.9)
    Metabolism Energy metabolism Sugars UDP-glucose 4-epimerase GalE (TIGR01179; EC 5.1.3.2; HMM-score: 59.7)
    thioester reductase domain (TIGR01746; HMM-score: 54.4)
    and 10 more
    NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family (TIGR04180; HMM-score: 51.3)
    hopanoid-associated sugar epimerase (TIGR03466; HMM-score: 50.6)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides ADP-glyceromanno-heptose 6-epimerase (TIGR02197; EC 5.1.3.20; HMM-score: 37.4)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides dTDP-glucose 4,6-dehydratase (TIGR01181; EC 4.2.1.46; HMM-score: 31.9)
    L-aminoadipate-semialdehyde dehydrogenase (TIGR03443; EC 1.2.1.31; HMM-score: 26.7)
    Hypothetical proteins Conserved TIGR01777 family protein (TIGR01777; HMM-score: 23.2)
    UDP-N-acetylglucosamine 4,6-dehydratase (inverting) (TIGR03589; EC 4.2.1.115; HMM-score: 15.1)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides GDP-mannose 4,6-dehydratase (TIGR01472; EC 4.2.1.47; HMM-score: 13.1)
    acetoacetyl-CoA reductase (TIGR01829; EC 1.1.1.36; HMM-score: 13.1)
    3-hydroxybutyrate dehydrogenase (TIGR01963; HMM-score: 12.2)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    NADP_Rossmann (CL0063) Epimerase; NAD dependent epimerase/dehydratase family (PF01370; HMM-score: 92.1)
    and 8 more
    NAD_binding_4; Male sterility protein (PF07993; HMM-score: 64.1)
    RmlD_sub_bind; RmlD substrate binding domain (PF04321; HMM-score: 58.4)
    3Beta_HSD; 3-beta hydroxysteroid dehydrogenase/isomerase family (PF01073; HMM-score: 51)
    GDP_Man_Dehyd; GDP-mannose 4,6 dehydratase (PF16363; HMM-score: 46.3)
    Polysacc_synt_2; Polysaccharide biosynthesis protein (PF02719; HMM-score: 33.6)
    NAD_binding_10; NAD(P)H-binding (PF13460; HMM-score: 31.5)
    NmrA; NmrA-like family (PF05368; HMM-score: 19.2)
    no clan defined DnaB; DnaB-like helicase N terminal domain (PF00772; HMM-score: 16.4)

⊟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
  • DeepLocPro: Cytoplasmic Membrane
    • Cytoplasmic Score: 0.1183
    • Cytoplasmic Membrane Score: 0.8653
    • Cell wall & surface Score: 0.0002
    • Extracellular Score: 0.0162
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.01321
    • TAT(Tat/SPI): 0.000325
    • LIPO(Sec/SPII): 0.002067
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MRKNILITGVHGYIGNALKDKLIEQGHQVDQINVRNQLWKSTSFKDYDVLIHTAALVHNNSPQARLSDYMQVNMLLTKQLAQKAKAEDVKQFIFMSTMAVYGKEGQVGKSDQIDTQTPMNPTTNYGISKKFAEQALQELISDSFKVAIVRPPMIYGAHCPGNFQRLMQLSKRLPIIPNINNQRSALYIKHLTAFIDQLISLEVTGVYHPQDSFYFDTSSVMYEIRRQSHRKTVLINMPSMLNKYFNKLSVFRKLFGNLTYSNTLYENNNALEVIPGKMSLVIADIMDETTTKDKA

⊟Experimental data[edit | edit source]

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

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulators: CodY (repression) regulon, SigB (activation) regulon
    CodY(TF)important in Amino acid metabolism; regulation predicted or transferred from N315 and NCTC 8325 in Wolfgramm et al. (https://doi.org/10.1101/2025.09.03.674026) 
    SigB(sigma factor)controlling a large regulon involved in stress/starvation response and adaptation; regulation predicted or transferred from N315 and NCTC 8325 in Wolfgramm et al. (https://doi.org/10.1101/2025.09.03.674026)   other strains

⊟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 can add further information about the gene and protein here. [edit]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ Blanca Taboada, Karel Estrada, Ricardo Ciria, Enrique Merino
    Operon-mapper: a web server for precise operon identification in bacterial and archaeal genomes.
    Bioinformatics: 2018, 34(23);4118-4120
    [PubMed:29931111] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

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