PangenomeCOLN315NCTC8325NewmanUSA300_FPR3757JSNZ04-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159LGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

FunGene: 08-OCT-2024

⊟Summary

• organism: Staphylococcus aureus JSNZ
• locus tag: JSNZ_001330
• pan locus tag^?: SAUPAN003721000
• symbol: sbcD
• pan gene symbol^?: sbcD
• synonym:
• product: exonuclease subunit SbcD

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: JSNZ_001330
• symbol: sbcD
• product: exonuclease subunit SbcD
• replicon: chromosome
• strand: +
• coordinates: 1335638..1336759
• length: 1122
• essential: unknown other strains

⊟Accession numbers

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

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
  61
  121
  181
  241
  301
  361
  421
  481
  541
  601
  661
  721
  781
  841
  901
  961
  1021
  1081
  
  ATGAAAATTATACATACAGCAGACTGGCACTTAGGGAAAATATTAAATGGCAAACAGCTT
  TTAGAAGATCAAGCGTATATTTTAGATATGTTCGTAGAAAAAATGAAAGAAGAAGAACCC
  GATATCATTGTGATAGCTGGAGATTTATATGACACAACATATCCAAGTAAAGATGCAATC
  ATGTTATTAGAAAAAGCGATTGGAAAGTTAAATTTAGAACTGCGTATACCAATAATTATG
  ATTAGTGGAAATCACGATGGTAAAGAGAGGTTAAACTATGGGGCGAGTTGGTTTGAACAT
  AATCAGTTATTTATAAGAACAGATTTTACATCGATTAATTCACCAATAGAGATAAATGGG
  GTTAATTTTTATACACTCCCTTATGCTACTGTGAGCGAAATGAAACACTACTTTGAAGAT
  GACACCATTGAAACACATCAACAGGGAATTACGCGCTGTATTGAAACAATAGCACCGGAA
  ATTGATGAAGATGCCGTCAATATTTTAATTAGTCATCTGACTGTTCAAGGTGGAAAGACA
  TCTGATTCTGAAAGACCATTAACTATTGGAACGGTTGAATCAGTTCAGAAAGGTGTTTTT
  GATATATTTGATTATGTCATGCTAGGTCACTTGCATCATCCATTTAGGATAGAAGACGAC
  AAAATTAAATATAGTGGCTCCTTATTGCAGTATTCATTTTCGGAAGCGGGTCAAGCTAAA
  GGGTATAGACGTGTAACAATTAATGATGGCATTATTAACGATGTATTTATTCCTCTTAAG
  CCACTTAGACAATTGGAAATTATCTCAGGCGAATATAATGATGTTATTAATGAAAAAGTT
  CATGTGAAAAATAAAGATAATTATTTACATTTTAAACTTAAAAATATGTCTCATATTACT
  GATCCAATGATGAGTTTAAAACAAATTTATCCTAATACTTTAGCGCTGACAAATGAAACT
  TTTAATTACAATGAAGAAAATAATGCTATAGAAATAAGTGAAAAAGATGACATGTCAATT
  ATCGAAATGTTTTATAAACATATAACTGATAAAGAATTATCGGATATCCAATCTAAAAAG
  ATAAAAAATATTTTAGAAAACGAATTGAGAAAGGAGGATTAA
  60
  120
  180
  240
  300
  360
  420
  480
  540
  600
  660
  720
  780
  840
  900
  960
  1020
  1080
  1122
  

⊟Protein

⊟General

• locus tag: JSNZ_001330
• symbol: SbcD
• description: exonuclease subunit SbcD
• length: 373
• theoretical pI: 4.82327
• theoretical MW: 43022.7
• GRAVY: -0.397587

⊟Function

• reaction:
  EC 3.1.11.-?  ExPASy
• TIGRFAM:
  Genetic information processing DNA metabolism DNA replication, recombination, and repair exonuclease SbcCD, D subunit (TIGR00619; HMM-score: 184.6)
  and 4 more
  metallophosphoesterase, DNA ligase-associated (TIGR04123; HMM-score: 19.6)
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA repair protein (mre11) (TIGR00583; HMM-score: 17.6)
  putative phosphoesterase (TIGR03729; HMM-score: 16.4)
  Unknown function Enzymes of unknown specificity phosphodiesterase, MJ0936 family (TIGR00040; EC 3.1.-.-; HMM-score: 15.9)
• TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
• PFAM:
  Calcineurin (CL0163) Metallophos; Calcineurin-like phosphoesterase (PF00149; HMM-score: 60.6)
  and 3 more
  no clan defined SbcD_C; Type 5 capsule protein repressor C-terminal domain (PF12320; HMM-score: 41.7)
  Calcineurin (CL0163) Metallophos_2; Calcineurin-like phosphoesterase superfamily domain (PF12850; HMM-score: 30.6)
  no clan defined DUF4468; Domain of unknown function (DUF4468) with TBP-like fold (PF14730; HMM-score: 14.1)

⊟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
• DeepLocPro: Cytoplasmic
  • Cytoplasmic Score: 0.9905
  • Cytoplasmic Membrane Score: 0.0033
  • Cell wall & surface Score: 0.0003
  • Extracellular Score: 0.0058
• LocateP:
• SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.001106
  • TAT(Tat/SPI): 0.000045
  • LIPO(Sec/SPII): 0.000196
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI:
• RefSeq:
• UniProt:

⊟Protein sequence

• MKIIHTADWHLGKILNGKQLLEDQAYILDMFVEKMKEEEPDIIVIAGDLYDTTYPSKDAIMLLEKAIGKLNLELRIPIIMISGNHDGKERLNYGASWFEHNQLFIRTDFTSINSPIEINGVNFYTLPYATVSEMKHYFEDDTIETHQQGITRCIETIAPEIDEDAVNILISHLTVQGGKTSDSERPLTIGTVESVQKGVFDIFDYVMLGHLHHPFRIEDDKIKYSGSLLQYSFSEAGQAKGYRRVTINDGIINDVFIPLKPLRQLEIISGEYNDVINEKVHVKNKDNYLHFKLKNMSHITDPMMSLKQIYPNTLALTNETFNYNEENNAIEISEKDDMSIIEMFYKHITDKELSDIQSKKIKNILENELRKED

⊟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

⊟Regulation

• regulator: LexA (repression) regulon

  LexA

  (TF)

  important in SOS response; transcription unit predicted or transferred from N315 and NCTC 8325 in Wolfgramm et al. (https://doi.org/10.1101/2025.09.03.674026)

⊟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