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

NCBI: 02-MAR-2017

⊟Summary

• organism: Staphylococcus aureus USA300_FPR3757
• locus tag: SAUSA300_RS02475 [old locus tag: SAUSA300_0461 ]
• pan locus tag^?: SAUPAN002219000
• symbol: SAUSA300_RS02475
• pan gene symbol^?: holB
• synonym:
• product: DNA polymerase III subunit delta'

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SAUSA300_RS02475 [old locus tag: SAUSA300_0461 ]
• symbol: SAUSA300_RS02475
• product: DNA polymerase III subunit delta'
• replicon: chromosome
• strand: +
• coordinates: 521328..522254
• length: 927
• essential: unknown other strains

⊟Accession numbers

• Location: NC_007793 (521328..522254) NCBI
• BioCyc: SAUSA300_RS02475 BioCyc
• MicrobesOnline: see SAUSA300_0461

⊟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
  
  ATGGATGAACAGCAACAATTGACGAATGCATATCATTCAAATAAATTATCGCATGCCTAT
  TTATTTGAAGGTGATGATGCACAAACGATGAAACAAGTTGCGATTAATTTTGCAAAGCTT
  ATTTTATGTCAAACAGATAGTCAATGTGAAACAAAGGTTAGTACATATAATCATCCAGAC
  TTTATGTATATATCAACAACTGAGAATGCAATTAAGAAAGAACAAGTTGAACAACTTGTG
  CGTCATATGAATCAACTTCCTATAGAAAGCACAAATAAAGTGTACATCATTGAAGACTTT
  GAAAAGTTAACTGTTCAAGGGGAAAACAGTATCTTGAAATTTCTTGAAGAACCACCGGAC
  AATACGATTGCTATTTTATTGTCTACAAAACCTGAGCAAATTTTAGACACAATCCATTCA
  AGATGTCAGCATGTATATTTCAAGCCTATTGATAAAGAAAAGTTTATAAATAGATTAGTT
  GAACAAAACATGTCTAAGCCAGTAGCTGAAATGATTAGTACTTATACTACGCAAATAGAT
  AATGCAATGGCTTTAAATGAAGAATTTGATTTATTAGCATTAAGGAAATCAGTTATACGT
  TGGTGTGAATTGTTGCTTACTAATAAGCCAATGGCACTTATAGGTATTATTGATTTATTG
  AAACAGGCTAAAAATAAAAAACTGCAATCTTTAACTATTGCAGCTGTGAATGGTTTCTTC
  GAAGATATCATACATACAAAGGTAAATGTAGAGGATAAACAAATATATAGTGATTTAAAA
  AATGATATTGATCAATATGCGCAAAAGTTGTCGTTTAATCAATTAATTTTGATGTTTGAT
  CAACTGACGGAAGCACATAAGAAATTGAATCAAAATGTAAATCCAACGCTTGTATTTGAA
  CAAATCGTAATTAAGGGTGTGAGTTAG
  60
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  420
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  927
  

⊟Protein

⊟General

• locus tag: SAUSA300_RS02475 [old locus tag: SAUSA300_0461 ]
• symbol: SAUSA300_RS02475
• description: DNA polymerase III subunit delta'
• length: 308
• theoretical pI: 5.41475
• theoretical MW: 35515.6
• GRAVY: -0.314286

⊟Function

• reaction:
  EC 2.7.7.7?  ExPASy
  DNA-directed DNA polymerase Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
• TIGRFAM:
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA polymerase III, delta' subunit (TIGR00678; EC 2.7.7.7; HMM-score: 153.4)
  and 8 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: 102.8)
  Cellular processes Cellular processes Sporulation and germination ATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 18.7)
  Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 18.7)
  radical SAM/SPASM domain protein, ACGX system (TIGR04340; HMM-score: 14.9)
  mutatrotase, YjhT family (TIGR03547; EC 5.1.-.-; HMM-score: 13.6)
  Cellular processes Cellular processes Sporulation and germination ATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 13.1)
  Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 13.1)
  Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Menaquinone and ubiquinone naphthoate synthase (TIGR01929; EC 4.1.3.36; HMM-score: 11.7)
• TheSEED: see SAUSA300_0461
• PFAM:
  P-loop_NTPase (CL0023) DNA_pol3_delta2; DNA polymerase III, delta subunit (PF13177; HMM-score: 159.5)
  and 4 more
  post-AAA (CL0604) DNApol3-delta_C; DNA polymerase III, delta subunit, C terminal (PF09115; HMM-score: 26.9)
  DNA_pol3_gamma3; DNA polymerase III subunits gamma and tau domain III (PF12169; HMM-score: 20.5)
  no clan defined DUF4600; Domain of unknown function (DUF4600) (PF15372; HMM-score: 13.6)
  DUF7179; Family of unknown function (DUF7179) (PF23804; HMM-score: 10.4)

⊟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
• DeepLocPro: Cytoplasmic
  • Cytoplasmic Score: 0.6724
  • Cytoplasmic Membrane Score: 0.3178
  • Cell wall & surface Score: 0.0075
  • Extracellular Score: 0.0022
• LocateP:
• 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: 446266482 NCBI
• RefSeq: WP_000344337 NCBI
• UniProt: see SAUSA300_0461

⊟Protein sequence

• MDEQQQLTNAYHSNKLSHAYLFEGDDAQTMKQVAINFAKLILCQTDSQCETKVSTYNHPDFMYISTTENAIKKEQVEQLVRHMNQLPIESTNKVYIIEDFEKLTVQGENSILKFLEEPPDNTIAILLSTKPEQILDTIHSRCQHVYFKPIDKEKFINRLVEQNMSKPVAEMISTYTTQIDNAMALNEEFDLLALRKSVIRWCELLLTNKPMALIGIIDLLKQAKNKKLQSLTIAAVNGFFEDIIHTKVNVEDKQIYSDLKNDIDQYAQKLSFNQLILMFDQLTEAHKKLNQNVNPTLVFEQIVIKGVS

⊟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

⊟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 can add further information about the gene and protein here. [edit]

⊟Literature

⊟References

⊟Relevant publications