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

NCBI: 26-AUG-2013

⊟Summary

• organism: Staphylococcus aureus N315
• locus tag: SA0442 [new locus tag: SA_RS02550 ]
• pan locus tag^?: SAUPAN002219000
• symbol: holB
• pan gene symbol^?: holB
• synonym:
• product: DNA polymerase III subunit delta'

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SA0442 [new locus tag: SA_RS02550 ]
• symbol: holB
• product: DNA polymerase III subunit delta'
• replicon: chromosome
• strand: +
• coordinates: 514728..515654
• length: 927
• essential: no DEG other strains

⊟Accession numbers

• Gene ID: 1123233 NCBI
• RefSeq: NP_373694 NCBI
• BioCyc: see SA_RS02550
• MicrobesOnline: 102720 MicrobesOnline

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
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  901
  
  ATGGATGAACAGCAACAATTGACGAATGCATATCATTCAAATAAATTATCGCATGCCTAT
  TTATTTGAAGGTGATGATGCACAAACGATGAAACAAGTTGCGATTAATTTTGCAAAGCTT
  ATTTTATGTCAAACAGATAGTCAATGTGAAACAAAGGTTAGTACATATAATCATCCAGAC
  TTTATGTATATATCAACAACTGAGAATGCAATTAAGAAAGAACAAGTTGAACAACTTGTG
  CGTCATATGAATCAACTTCCTATAGAAAGCACAAATAAAGTGTACATCATTGAAGACTTT
  GAAAAGTTAACTGTTCAAGGGGAAAACAGTATCTTGAAATTTCTTGAAGAACCACCGGAC
  AATACGATTGCTATTTTATTGTCTACAAAACCTGAGCAAATTTTAGACACAATCCATTCA
  AGGTGTCAGCATGTGTATTTCAAGCCTATTGATAAAGAAAAGTTTATAAATAGATTAGTT
  GAACAAAACATGTCTAAGCCAGTAGCTGAAATGATTAGTACTTATACTACGCAAATAGAT
  AATGCAATAGCTTTAAATGAAGAATTTGATTTATTAGCATTAAGGAAATCAGTTATACGT
  TGGTGTGAATTGTTGCTTACTAACAAGCCAATGGCACTTATAGGTATTATTGATTTATTG
  AAACAGGCTAAAAATAAAAAACTGCAATCTTTAACTATTGCAGCTGTGAATGGTTTCTTC
  GAAGATATCATACATACAAAGGTAAATGTAGAGGATAAACAAATATATAGTGATTTAAAA
  AATGATATTGATCAATATGCGCAAAAGTTGTCGTTTAATCAATTATTTTTGATGTTTGAT
  CAACTGACGGAAGCACATAAGAAATTGAATCAAAATGTAAATCCAACGCTTGTATTTGAA
  CAAATCGTAATTAAGGGTGTGAGTTAG
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  927
  

⊟Protein

⊟General

• locus tag: SA0442 [new locus tag: SA_RS02550 ]
• symbol: HolB
• description: DNA polymerase III subunit delta'
• length: 308
• theoretical pI: 5.41475
• theoretical MW: 35531.6
• GRAVY: -0.311364

⊟Function

• TIGRFAM:
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA polymerase III, delta' subunit (TIGR00678; EC 2.7.7.7; HMM-score: 153.3)
  and 6 more
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA polymerase III, subunit gamma and tau (TIGR02397; EC 2.7.7.7; HMM-score: 103.7)
  Cellular processes Cellular processes Sporulation and germination ATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 19.8)
  Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 19.8)
  radical SAM/SPASM domain protein, ACGX system (TIGR04340; HMM-score: 15)
  Cellular processes Cellular processes Sporulation and germination ATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 13.8)
  Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 13.8)
• TheSEED  :
  • DNA polymerase III delta prime subunit, clamp loader part E
  DNA Metabolism DNA replication DNA-replication  DNA polymerase III delta prime subunit (EC 2.7.7.7)
  and 1 more
  Stress Response Heat shock Heat shock dnaK gene cluster extended  DNA polymerase III delta prime subunit (EC 2.7.7.7)
• PFAM:
  P-loop_NTPase (CL0023) DNA_pol3_delta2; DNA polymerase III, delta subunit (PF13177; HMM-score: 155.9)
  and 3 more
  post-AAA (CL0604) DNApol3-delta_C; DNA polymerase III, delta subunit, C terminal (PF09115; HMM-score: 23.9)
  DNA_pol3_gamma3; DNA polymerase III subunits gamma and tau domain III (PF12169; HMM-score: 19)
  no clan defined DUF1031; Protein of unknown function (DUF1031) (PF06275; HMM-score: 16.1)

⊟Structure, modifications & cofactors

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

⊟Localization

• PSORTb: Cytoplasmic
  • Cytoplasmic Score: 9.97
  • Cytoplasmic Membrane Score: 0
  • Cellwall Score: 0.01
  • Extracellular Score: 0.02
  • 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): 0.032526
  • TAT(Tat/SPI): 0.004331
  • LIPO(Sec/SPII): 0.003335
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI: 15926161 NCBI
• RefSeq: NP_373694 NCBI
• UniProt: A0A0H3JKW7 UniProt

⊟Protein sequence

• MDEQQQLTNAYHSNKLSHAYLFEGDDAQTMKQVAINFAKLILCQTDSQCETKVSTYNHPDFMYISTTENAIKKEQVEQLVRHMNQLPIESTNKVYIIEDFEKLTVQGENSILKFLEEPPDNTIAILLSTKPEQILDTIHSRCQHVYFKPIDKEKFINRLVEQNMSKPVAEMISTYTTQIDNAIALNEEFDLLALRKSVIRWCELLLTNKPMALIGIIDLLKQAKNKKLQSLTIAAVNGFFEDIIHTKVNVEDKQIYSDLKNDIDQYAQKLSFNQLFLMFDQLTEAHKKLNQNVNPTLVFEQIVIKGVS

⊟Experimental data

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

⊟Expression & Regulation

⊟Operon

• MicrobesOnline: no polycistronic organisation predicted

⊟Regulation

• regulator:

⊟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