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NCBI: 06-JUL-2013

Summary[edit source | edit]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_0515 [new locus tag: NWMN_RS02990 ]
  • pan locus tag?: SAUPAN002325000
  • symbol: capD
  • pan gene symbol?:
  • synonym:
  • product: polysaccharide biosynthesis protein CapD

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: NWMN_0515 [new locus tag: NWMN_RS02990 ]
  • symbol: capD
  • product: polysaccharide biosynthesis protein CapD
  • replicon: chromosome
  • strand: +
  • coordinates: 594401..595366
  • length: 966
  • essential: unknown other strains

Accession numbers[edit source | edit]

Phenotype[edit source | edit]

  • Share your knowledge and add information here. [edit]

DNA sequence[edit source | edit]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    ATGAAAAAAATTATGATTACTGGTGCATTAGGACAAATTGGTACAGAATTAGTTGTTAAG
    TGCAGAGAAATTTATGGGACAGATAATGTTCTTGCTACAGATATTAGGGAACCTGAAGCA
    GACTCACCTGTACAAAATGGACCATTTGAAATCTTAGACGTAACAGATCGTGACCGTATG
    TTTGAGTTAGTTAGGGACTTTGAAGCGGATAGTCTAATGCATATGGCAGCATTATTATCA
    GCAACTGCTGAGAAAAATCCAATTCTAGCTTGGGATTTAAATATGGGTGGATTAATGAAT
    GCATTAGAAGCTGCAAGAACTTATAATTTGCACTTTTTCACACCAAGTTCAATTGGTGCA
    TTTGGAGACTCAACTCCTAAAGTTAATACGCCACAAGTAACGATTCAGCAACCTACGACA
    ATGTATGGTGTAAATAAAGTAGCTGGAGAATTATTGTGTCAATACTATTTCAAACGTTTT
    GGTGTAGATACAAGAAGTGTTAGATTCCCAGGTTTAATCTCGCATGTTAAAGAGCCAGGT
    GGCGGTACTACAGACTATGCTGTTGAAATATACTTCAAAGCAGTAAGAGAGGGTCATTAT
    ACAAGCTTCATAGATAAAGGCACGTATATGGATATGATGTATATGGATGATGCAATTGAA
    GCAATTATTAAACTTATGGAAGCAGACGACGCTAAATTAGAAACTAGAAATGGTTATAAT
    TTGAGCGCAATGAGTTTTGATCCAGAGATGGTAAAAGAAGCAATTCAAGAATACTATCCC
    AATTTTACATTAGATTACGATGTTGATCCTATTAGACAAGGTATCGCTAATAGTTGGCCG
    GATTCTATTGATACAAGCTGTTCACGTGGCGAATGGGGATTTGATCCTAAATATGATTTA
    GCGAGCATGACTAAATTAATGTTAGAAGCTATTGAACAAAAAGATACTGTTAAAAATAAT
    AACTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    966

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: NWMN_0515 [new locus tag: NWMN_RS02990 ]
  • symbol: CapD
  • description: polysaccharide biosynthesis protein CapD
  • length: 321
  • theoretical pI: 4.35464
  • theoretical MW: 36052.7
  • GRAVY: -0.311526

Function[edit source | edit]

  • reaction:
  • TIGRFAM:
    Cell structureCell envelopeBiosynthesis and degradation of surface polysaccharides and lipopolysaccharidesADP-glyceromanno-heptose 6-epimerase (TIGR02197; EC 5.1.3.20; HMM-score: 44.8)
    Cell structureCell envelopeBiosynthesis and degradation of surface polysaccharides and lipopolysaccharidesdTDP-4-dehydrorhamnose reductase (TIGR01214; EC 1.1.1.133; HMM-score: 39.5)
    MetabolismEnergy metabolismSugarsUDP-glucose 4-epimerase GalE (TIGR01179; EC 5.1.3.2; HMM-score: 30.9)
    Cell structureCell envelopeBiosynthesis and degradation of surface polysaccharides and lipopolysaccharidesdTDP-glucose 4,6-dehydratase (TIGR01181; EC 4.2.1.46; HMM-score: 30.1)
    NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family (TIGR04180; HMM-score: 21.6)
    UDP-N-acetylglucosamine 4,6-dehydratase (inverting) (TIGR03589; EC 4.2.1.115; HMM-score: 21.5)
    Cell structureCell envelopeBiosynthesis and degradation of surface polysaccharides and lipopolysaccharidesCDP-glucose 4,6-dehydratase (TIGR02622; EC 4.2.1.45; HMM-score: 20)
  • TheSEED:  
    Amino Acids and DerivativesAlanine, serine, and glycineGlycine Biosynthesis L-threonine 3-dehydrogenase (EC 1.1.1.103) 
    Lysine, threonine, methionine, and cysteineThreonine degradation L-threonine 3-dehydrogenase (EC 1.1.1.103) 
  • PFAM:
    NADP_Rossmann (CL0063) Epimerase; NAD dependent epimerase/dehydratase family (PF01370; HMM-score: 88.8)
    GDP_Man_Dehyd; GDP-mannose 4,6 dehydratase (PF16363; HMM-score: 56.3)
    RmlD_sub_bind; RmlD substrate binding domain (PF04321; HMM-score: 43.7)
    Polysacc_synt_2; Polysaccharide biosynthesis protein (PF02719; HMM-score: 35.8)
    3Beta_HSD; 3-beta hydroxysteroid dehydrogenase/isomerase family (PF01073; HMM-score: 22.3)
    NAD_binding_4; Male sterility protein (PF07993; HMM-score: 16.6)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:
    NWMN_2534(arcA)arginine deiminase  [1] (data from MRSA252)
    NWMN_0961(pdhC)branched-chain alpha-keto acid dehydrogenase subunit E2  [1] (data from MRSA252)
    NWMN_1592(pykA)pyruvate kinase  [1] (data from MRSA252)
    NWMN_1166(rpsB)30S ribosomal protein S2  [1] (data from MRSA252)
    NWMN_2146(rpsC)30S ribosomal protein S3  [1] (data from MRSA252)
    NWMN_2135(rpsE)30S ribosomal protein S5  [1] (data from MRSA252)

Localization[edit source | edit]

  • PSORTb: unknown (no significant prediction)
    • Cytoplasmic Score: 2.5
    • Cytoplasmic Membrane Score: 2.5
    • Cellwall Score: 2.5
    • Extracellular Score: 2.5
    • Internal Helices: 0
  • LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular Possibility: 1
    • Signal Peptide Possibility: -1
    • N-terminally Anchored Score: 0
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • Ymax: 0.129
    • Ymax_pos: 22
    • Cmax: 0.157
    • Cmax_pos: 33
    • Smax: 0.222
    • Smax_pos: 18
    • Smean: 0.153
    • D: 0.138
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MKKIMITGALGQIGTELVVKCREIYGTDNVLATDIREPEADSPVQNGPFEILDVTDRDRMFELVRDFEADSLMHMAALLSATAEKNPILAWDLNMGGLMNALEAARTYNLHFFTPSSIGAFGDSTPKVNTPQVTIQQPTTMYGVNKVAGELLCQYYFKRFGVDTRSVRFPGLISHVKEPGGGTTDYAVEIYFKAVREGHYTSFIDKGTYMDMMYMDDAIEAIIKLMEADDAKLETRNGYNLSAMSFDPEMVKEAIQEYYPNFTLDYDVDPIRQGIANSWPDSIDTSCSRGEWGFDPKYDLASMTKLMLEAIEQKDTVKNNN

Experimental data[edit source | edit]

  • experimentally validated: no data available

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

Regulation[edit source | edit]

  • sigma factor:
  • regulator: CcpA
    CcpA (TF) important in Carbon catabolism  RegPrecise

Transcription pattern[edit source | edit]

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

Protein stability[edit source | edit]

  • half-life: no data available

Biological Material[edit source | edit]

Mutants[edit source | edit]

Expression vector[edit source | edit]

lacZ fusion[edit source | edit]

GFP fusion[edit source | edit]

two-hybrid system[edit source | edit]

FLAG-tag construct[edit source | edit]

Antibody[edit source | edit]

Other Information[edit source | edit]

You are kindly invited to share additional interesting facts.

Literature[edit source | edit]

References[edit source | edit]

  1. 1.0 1.1 1.2 1.3 1.4 1.5

Relevant publications[edit source | edit]