PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159LGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 06-JUL-2013

⊟Summary

• organism: Staphylococcus aureus Newman
• locus tag: NWMN_1257 [new locus tag: NWMN_RS07100 ]
• pan locus tag^?: SAUPAN003721000
• symbol: sbcD
• pan gene symbol^?: sbcD
• synonym:
• product: exonuclease SbcD

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: NWMN_1257 [new locus tag: NWMN_RS07100 ]
• symbol: sbcD
• product: exonuclease SbcD
• replicon: chromosome
• strand: +
• coordinates: 1379787..1380908
• length: 1122
• essential: unknown other strains

⊟Accession numbers

• Gene ID: 5330749 NCBI
• RefSeq: YP_001332291 NCBI
• BioCyc:
• MicrobesOnline: 3706809 MicrobesOnline

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
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  ATGAAAATTATACATACAGCAGACTGGCACTTAGGGAAAATATTAAATGGCAAACAGCTT
  TTAGAAGATCAAGCGTATATTTTAGATATGTTCGTAGAAAAAATGAAAGAAGAAGAACCT
  GATATCATTGTGATAGCTGGAGATTTATATGACACAACATATCCAAGTAAAGATGCAATC
  ATGTTATTAGAACAAGCGATTGGAAAGTTAAATTTAGAACTGCGTATACCAATAATTATT
  ATTAGTGGAAATCACGATGGTAAAGAGAGGTTAAACTATGGGGCGAGTTGGTTTGAACAT
  AATCAGTTATTTATAAGAACAGATTTTACATCGATTAATTCACCAATAGAGATAAATGGG
  GTTAATTTTTATACACTCCCTTATGCTACTGTGAGCGAAATGAAACACTACTTTGAAGAT
  GACACCATTGAAACACATCAACAGGGAATTACGCGCTGTATTGAAACAATAGCACCGGAA
  ATTGATGAAGATGCCGTCAATATTTTAATTAGTCATCTGACTGTTCAAGGTGGAAAGACA
  TCTGATTCTGAAAGACCATTAACTATTGGAACGGTTGAATCAGTTCAGAAAGGTGTTTTT
  GATATATTTGATTATGTCATGCTAGGTCACTTGCATCATCCATTTAGTATAGAAGACGAC
  AAAATTAAATATAGTGGCTCCTTATTGCAGTATTCATTTTCGGAAGCGGGTCAAGCTAAA
  GGGTATAGACGTGTAACAATTAATGATGGCATTATTAACGATGTATTTATTCCTCTTAAG
  CCACTTAGACAATTGGAAATTATCTCAGGCGAATATAATGATGTTATTAATGAAAAAGTT
  CATGTGAAAAATAAAGATAATTATTTACATTTTAAACTTAAAAATATGTCTCATATTACT
  GATCCAATGATGAGTTTAAAACAAATTTATCCTAATACTTTAGCGCTGACGAATGAAACT
  TTTAATTACAATGAAGAAAATAATGCTATAGAAATAAGTGAAAAAGATGACATGTCAATT
  ATCGAAATGTTTTATAAACATATAACTGATAAAGAATTATCGGATATCCAATCTAAAAAG
  ATAAAAAATATTTTAGAAAACGAATTGAGAAAGGAGGATTAA
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  1122
  

⊟Protein

⊟General

• locus tag: NWMN_1257 [new locus tag: NWMN_RS07100 ]
• symbol: SbcD
• description: exonuclease SbcD
• length: 373
• theoretical pI: 4.71531
• theoretical MW: 42935.5
• GRAVY: -0.379625

⊟Function

• TIGRFAM:
  Genetic information processing DNA metabolism DNA replication, recombination, and repair exonuclease SbcCD, D subunit (TIGR00619; HMM-score: 185)
  and 4 more
  metallophosphoesterase, DNA ligase-associated (TIGR04123; HMM-score: 19.2)
  Unknown function Enzymes of unknown specificity phosphodiesterase, MJ0936 family (TIGR00040; EC 3.1.-.-; HMM-score: 16.9)
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA repair protein (mre11) (TIGR00583; HMM-score: 16.3)
  putative phosphoesterase (TIGR03729; HMM-score: 16.1)
• TheSEED: data available for COL, N315, NCTC8325, USA300_FPR3757
• PFAM:
  Calcineurin (CL0163) Metallophos; Calcineurin-like phosphoesterase (PF00149; HMM-score: 57.1)
  and 4 more
  Metallophos_2; Calcineurin-like phosphoesterase superfamily domain (PF12850; HMM-score: 36.8)
  no clan defined SbcD_C; Type 5 capsule protein repressor C-terminal domain (PF12320; HMM-score: 34.4)
  DUF4468; Domain of unknown function (DUF4468) with TBP-like fold (PF14730; HMM-score: 13.5)
  Actin_ATPase (CL0108) MutL; MutL protein (PF13941; HMM-score: 10.7)

⊟Structure, modifications & cofactors

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

⊟Localization

• PSORTb: Cytoplasmic
  • Cytoplasmic Score: 7.5
  • Cytoplasmic Membrane Score: 1.15
  • Cellwall Score: 0.62
  • Extracellular Score: 0.73
  • 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: 1
  • Predicted Cleavage Site: No CleavageSite
• SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.00114
  • TAT(Tat/SPI): 0.000045
  • LIPO(Sec/SPII): 0.000186
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI: 151221469 NCBI
• RefSeq: YP_001332291 NCBI
• UniProt: A6QGP7 UniProt

⊟Protein sequence

• MKIIHTADWHLGKILNGKQLLEDQAYILDMFVEKMKEEEPDIIVIAGDLYDTTYPSKDAIMLLEQAIGKLNLELRIPIIIISGNHDGKERLNYGASWFEHNQLFIRTDFTSINSPIEINGVNFYTLPYATVSEMKHYFEDDTIETHQQGITRCIETIAPEIDEDAVNILISHLTVQGGKTSDSERPLTIGTVESVQKGVFDIFDYVMLGHLHHPFSIEDDKIKYSGSLLQYSFSEAGQAKGYRRVTINDGIINDVFIPLKPLRQLEIISGEYNDVINEKVHVKNKDNYLHFKLKNMSHITDPMMSLKQIYPNTLALTNETFNYNEENNAIEISEKDDMSIIEMFYKHITDKELSDIQSKKIKNILENELRKED

⊟Experimental data

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

⊟Expression & Regulation

⊟Operon

• MicrobesOnline: sbcD > sbcC > NWMN_1259

⊟Regulation

• regulator: LexA (repression) regulon

  LexA

  (TF)

  important in SOS response; RegPrecise

⊟Transcription pattern

• S.aureus Expression Data Browser: data available for NCTC8325

⊟Protein synthesis (provided by Aureolib)

• Aureolib: no data available

⊟Protein stability

• half-life: no data available

⊟Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊟Other Information

You are kindly invited to share additional interesting facts.

⊟Literature

⊟References

⊟Relevant publications