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

NCBI: 10-JUN-2013

⊟Summary

• organism: Staphylococcus aureus USA300_FPR3757
• locus tag: SAUSA300_1143 [new locus tag: SAUSA300_RS06185 ]
• pan locus tag^?: SAUPAN003548000
• symbol: topA
• pan gene symbol^?: topA
• synonym:
• product: DNA topoisomerase I

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SAUSA300_1143 [new locus tag: SAUSA300_RS06185 ]
• symbol: topA
• product: DNA topoisomerase I
• replicon: chromosome
• strand: +
• coordinates: 1252764..1254839
• length: 2076
• essential: unknown other strains

⊟Accession numbers

• Gene ID: 3915296 NCBI
• RefSeq: YP_493840 NCBI
• BioCyc: see SAUSA300_RS06185
• MicrobesOnline: 1292658 MicrobesOnline

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

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  ATGACATTGGCAGATAATTTAGTCATTGTTGAATCGCCTGCAAAAGCAAAAACCATTGAA
  AAGTATTTAGGTAAGAAATATAAAGTTATAGCTTCAATGGGACACGTCAGAGACTTACCA
  AGAAGTCAAATGGGTGTCGACACTGAAGATAATTACGAACCAAAATATATAACAATACGC
  GGAAAAGGTCCTGTTGTAAAAGAATTGAAAAAACATGCAAAAAAAGCGAAAAACGTCTTT
  CTCGCAAGTGACCCCGACCGTGAAGGTGAAGCAATTGCTTGGCATTTATCAAAAATTTTA
  GAGCTTGAAGATTCTAAAGAAAATCGCGTTGTTTTCAACGAAATAACTAAAGACGCTGTT
  AAAGAAAGTTTTAAAAATCCTAGAGAAATTGAAATGAACTTAGTCGATGCACAACAAGCG
  CGTCGAATATTAGATAGATTAGTTGGCTATAACATCTCGCCAGTTCTTTGGAAAAAAGTA
  AAAAAAGGGTTGTCAGCGGGTCGAGTTCAATCTGTTGCACTTCGTTTAGTCATTGACCGT
  GAAAATGAAATTCGAAACTTTAAACCAGAAGAATATTGGACTATTGAAGGAGAATTTAGA
  TACAAAAAATCAAAATTCAATGCTAAATTCCTTCATTATAAAAATAAACCTTTTAAACTA
  AAAACGAAAAAAGATGTTGAGAAAATTACAGCTGCATTAGATGGAGATCAATTCGAAATT
  ACAAACGTGACTAAAAAAGAAAAAACGCGTAATCCAGCAAACCCATTTACAACTTCTACA
  TTACAACAAGAGGCGGCACGTAAATTAAACTTTAAAGCAAGAAAAACAATGATGGTCGCA
  CAACAATTATATGAAGGTATAGATTTGAAAAAACAAGGTACGATTGGTTTAATAACATAT
  ATGAGAACCGATTCTACACGTATTTCAGATACTGCCAAAGTTGAAGCAAAACAGTATATA
  ACTGATAAATACGGTGAATCTTACACTTCTAAACGTAAAGCATCAGGGAAACAAGGTGAC
  CAAGATGCCCATGAGGCTATTAGACCTTCAAGTACTATGCGTACGCCAGATGATATGAAG
  TCATTTTTGACGAAAGACCAATACCGATTATACAAATTAATTTGGGAACGATTTGTTGCT
  AGTCAAATGGCTCCAGCAATACTTGATACAGTCTCATTAGACATAACACAAGGTGACATT
  AAATTTAGAGCGAATGGTCAAACAATCAAGTTTAAAGGATTTATGACACTTTATGTAGAA
  ACTAAAGATGATAGTGATAGCGAAAAGGAAAATAAACTGCCTAAATTAGAGCAAGGTGAT
  AAAGTCACAGCAACTCAAATTGAACCAGCTCAACACTATACACAACCACCTCCAAGATAT
  ACTGAGGCGAGATTAGTAAAAACACTAGAAGAATTGAAAATTGGGCGACCATCAACTTAT
  GCACCGACAATAGATACGATTCAAAAGCGTAACTATGTCAAATTAGAAAGTAAGCGTTTT
  GTTCCTACTGAGTTGGGAGAAATAGTTCATGAACAAGTGAAAGAATACTTCCCAGAGATT
  ATTGATGTGGAATTCACAGTGAATATGGAAACGTTACTTGATAAGATTGCAGAAGGCGAC
  ATTACATGGAGGAAAGTAATCGACGGTTTCTTTAGTAGCTTTAAACAAGATGTTGAACGT
  GCTGAAGAAGAGATGGAAAAGATTGAAATCAAAGATGAGCCAGCCGGTGAAGACTGTGAA
  ATTTGTGGTTCTCCTATGGTTATAAAAATGGGACGCTATGGTAAGTTCATGGCTTGCTCA
  AACTTCCCGGATTGTCGTAATACAAAAGCGATAGTTAAGTCTATTGGTGTTAAATGTCCA
  AAATGTAATGATGGTGACGTCGTAGAAAGAAAATCTAAAAAGAATCGTGTCTTTTATGGA
  TGTTCGAAATATCCTGAATGCGACTTTATCTCTTGGGATAAGCCGATTGGAAGAGATTGT
  CCAAAATGTAACCAATATCTTGTTGAAAATAAAAAAGGCAAGACAACACAAGTAATATGT
  TCAAATTGCGATTATAAAGAGGCAGCGCAGAAATAA
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⊟Protein

⊟General

• locus tag: SAUSA300_1143 [new locus tag: SAUSA300_RS06185 ]
• symbol: TopA
• description: DNA topoisomerase I
• length: 691
• theoretical pI: 9.4884
• theoretical MW: 79326.5
• GRAVY: -0.719247

⊟Function

• reaction:
  EC 5.99.1.2?  ExPASy
  DNA topoisomerase ATP-independent breakage of single-stranded DNA, followed by passage and rejoining
• TIGRFAM:
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA topoisomerase I (TIGR01051; EC 5.99.1.2; HMM-score: 859.4)
  and 6 more
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA topoisomerase I (TIGR01057; EC 5.99.1.2; HMM-score: 311.8)
  Genetic information processing DNA metabolism DNA replication, recombination, and repair reverse gyrase (TIGR01054; EC 3.6.4.12,5.99.1.3; HMM-score: 309.9)
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA topoisomerase III (TIGR01056; EC 5.99.1.2; HMM-score: 211.2)
  Genetic information processing Transcription RNA processing ribonuclease M5 (TIGR00334; EC 3.1.26.8; HMM-score: 15.2)
  conserved hypothetical protein (TIGR02443; HMM-score: 5.8)
  Metabolism Energy metabolism Methanogenesis methyl coenzyme M reductase system, component A2 (TIGR03269; HMM-score: 5.6)
• TheSEED  :
  • DNA topoisomerase I (EC 5.99.1.2)
  Conserved gene cluster associated with Met-tRNA formyltransferase  DNA topoisomerase I (EC 5.99.1.2)
• PFAM:
  no clan defined Topoisom_bac; DNA topoisomerase (PF01131; HMM-score: 446.1)
  and 10 more
  Zn_Beta_Ribbon (CL0167) zf-C4_Topoisom; Topoisomerase DNA binding C4 zinc finger (PF01396; HMM-score: 108.3)
  Toprim-like (CL0413) Toprim; Toprim domain (PF01751; HMM-score: 106.4)
  Toprim_4; Toprim domain (PF13662; HMM-score: 18.5)
  Toprim_2; Toprim-like (PF13155; HMM-score: 15.5)
  Zn_Beta_Ribbon (CL0167) RNA_POL_M_15KD; RNA polymerases M/15 Kd subunit (PF02150; HMM-score: 14.8)
  Auto_anti-p27; Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27) (PF06677; HMM-score: 12.1)
  IHF-likeDNA-bdg (CL0548) Bac_DNA_binding; Bacterial DNA-binding protein (PF00216; HMM-score: 11.8)
  no clan defined HypA; Hydrogenase/urease nickel incorporation, metallochaperone, hypA (PF01155; HMM-score: 10)
  Zn_Beta_Ribbon (CL0167) zf-TFIIB; Transcription factor zinc-finger (PF13453; HMM-score: 9.5)
  RING (CL0229) IBR; IBR domain, a half RING-finger domain (PF01485; HMM-score: 7.1)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors: Mg²⁺
• 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): 0.009849
  • TAT(Tat/SPI): 0.000672
  • LIPO(Sec/SPII): 0.001226
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI: 87161325 NCBI
• RefSeq: YP_493840 NCBI
• UniProt: Q2FHI8 UniProt

⊟Protein sequence

• MTLADNLVIVESPAKAKTIEKYLGKKYKVIASMGHVRDLPRSQMGVDTEDNYEPKYITIRGKGPVVKELKKHAKKAKNVFLASDPDREGEAIAWHLSKILELEDSKENRVVFNEITKDAVKESFKNPREIEMNLVDAQQARRILDRLVGYNISPVLWKKVKKGLSAGRVQSVALRLVIDRENEIRNFKPEEYWTIEGEFRYKKSKFNAKFLHYKNKPFKLKTKKDVEKITAALDGDQFEITNVTKKEKTRNPANPFTTSTLQQEAARKLNFKARKTMMVAQQLYEGIDLKKQGTIGLITYMRTDSTRISDTAKVEAKQYITDKYGESYTSKRKASGKQGDQDAHEAIRPSSTMRTPDDMKSFLTKDQYRLYKLIWERFVASQMAPAILDTVSLDITQGDIKFRANGQTIKFKGFMTLYVETKDDSDSEKENKLPKLEQGDKVTATQIEPAQHYTQPPPRYTEARLVKTLEELKIGRPSTYAPTIDTIQKRNYVKLESKRFVPTELGEIVHEQVKEYFPEIIDVEFTVNMETLLDKIAEGDITWRKVIDGFFSSFKQDVERAEEEMEKIEIKDEPAGEDCEICGSPMVIKMGRYGKFMACSNFPDCRNTKAIVKSIGVKCPKCNDGDVVERKSKKNRVFYGCSKYPECDFISWDKPIGRDCPKCNQYLVENKKGKTTQVICSNCDYKEAAQK

⊟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: dprA > topA

⊟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