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FunGene: 08-OCT-2024
⊟Summary[edit | edit source]
- 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[edit | edit source]
⊟Gene[edit | edit source]
⊟General[edit | edit source]
- 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[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]
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1081ATGAAAATTATACATACAGCAGACTGGCACTTAGGGAAAATATTAAATGGCAAACAGCTT
TTAGAAGATCAAGCGTATATTTTAGATATGTTCGTAGAAAAAATGAAAGAAGAAGAACCC
GATATCATTGTGATAGCTGGAGATTTATATGACACAACATATCCAAGTAAAGATGCAATC
ATGTTATTAGAAAAAGCGATTGGAAAGTTAAATTTAGAACTGCGTATACCAATAATTATG
ATTAGTGGAAATCACGATGGTAAAGAGAGGTTAAACTATGGGGCGAGTTGGTTTGAACAT
AATCAGTTATTTATAAGAACAGATTTTACATCGATTAATTCACCAATAGAGATAAATGGG
GTTAATTTTTATACACTCCCTTATGCTACTGTGAGCGAAATGAAACACTACTTTGAAGAT
GACACCATTGAAACACATCAACAGGGAATTACGCGCTGTATTGAAACAATAGCACCGGAA
ATTGATGAAGATGCCGTCAATATTTTAATTAGTCATCTGACTGTTCAAGGTGGAAAGACA
TCTGATTCTGAAAGACCATTAACTATTGGAACGGTTGAATCAGTTCAGAAAGGTGTTTTT
GATATATTTGATTATGTCATGCTAGGTCACTTGCATCATCCATTTAGGATAGAAGACGAC
AAAATTAAATATAGTGGCTCCTTATTGCAGTATTCATTTTCGGAAGCGGGTCAAGCTAAA
GGGTATAGACGTGTAACAATTAATGATGGCATTATTAACGATGTATTTATTCCTCTTAAG
CCACTTAGACAATTGGAAATTATCTCAGGCGAATATAATGATGTTATTAATGAAAAAGTT
CATGTGAAAAATAAAGATAATTATTTACATTTTAAACTTAAAAATATGTCTCATATTACT
GATCCAATGATGAGTTTAAAACAAATTTATCCTAATACTTTAGCGCTGACAAATGAAACT
TTTAATTACAATGAAGAAAATAATGCTATAGAAATAAGTGAAAAAGATGACATGTCAATT
ATCGAAATGTTTTATAAACATATAACTGATAAAGAATTATCGGATATCCAATCTAAAAAG
ATAAAAAATATTTTAGAAAACGAATTGAGAAAGGAGGATTAA60
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⊟Protein[edit | edit source]
⊟General[edit | edit source]
- locus tag: JSNZ_001330
- symbol: SbcD
- description: exonuclease subunit SbcD
- length: 373
- theoretical pI: 4.82327
- theoretical MW: 43022.7
- GRAVY: -0.397587
⊟Function[edit | edit source]
- reaction: EC 3.1.11.-? ExPASy
- TIGRFAM: DNA metabolism DNA replication, recombination, and repair exonuclease SbcCD, D subunit (TIGR00619; HMM-score: 184.6)and 4 moremetallophosphoesterase, DNA ligase-associated (TIGR04123; HMM-score: 19.6)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 moreno 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[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
- 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[edit | edit source]
- GI:
- RefSeq:
- UniProt:
⊟Protein sequence[edit | edit source]
- MKIIHTADWHLGKILNGKQLLEDQAYILDMFVEKMKEEEPDIIVIAGDLYDTTYPSKDAIMLLEKAIGKLNLELRIPIIMISGNHDGKERLNYGASWFEHNQLFIRTDFTSINSPIEINGVNFYTLPYATVSEMKHYFEDDTIETHQQGITRCIETIAPEIDEDAVNILISHLTVQGGKTSDSERPLTIGTVESVQKGVFDIFDYVMLGHLHHPFRIEDDKIKYSGSLLQYSFSEAGQAKGYRRVTINDGIINDVFIPLKPLRQLEIISGEYNDVINEKVHVKNKDNYLHFKLKNMSHITDPMMSLKQIYPNTLALTNETFNYNEENNAIEISEKDDMSIIEMFYKHITDKELSDIQSKKIKNILENELRKED
⊟Experimental data[edit | edit source]
⊟Expression & Regulation[edit | edit source]
⊟Regulation[edit | edit source]
⊟Transcription pattern[edit | edit source]
- S.aureus Expression Data Browser: data available for NCTC8325
⊟Protein synthesis (provided by Aureolib)[edit | edit source]
- Aureolib: no data available
⊟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]
- ↑ 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) - ↑ Hannes Wolfgramm, Larissa Milena Busch, Jöran Tebben, Henry Mehlan, Lisa Hagenau, Thomas Sura, Tilly Hoffmüller, Elisa Bludau, Manuela Gesell Salazar, Alexander Reder, Stephan Michalik, Leif Steil, Kristin Surmann, Ulrike Mäder, Silva Holtfreter, Uwe Völker
Integrated genomic and proteomic analysis of the mouse-adapted Staphylococcus aureus strain JSNZ.
Curr Res Microb Sci: 2025, 9;100489
[PubMed:41146725] [WorldCat.org] [DOI] (I e)