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NCBI: 10-JUN-2013

Summary[edit source | edit]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL1682 [new locus tag: SACOL_RS08580 ]
  • pan locus tag?: SAUPAN004230000
  • symbol: SACOL1682
  • pan gene symbol?:
  • synonym:
  • product: recombination factor protein RarA

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SACOL1682 [new locus tag: SACOL_RS08580 ]
  • symbol: SACOL1682
  • product: recombination factor protein RarA
  • replicon: chromosome
  • strand: +
  • coordinates: 1710599..1711873
  • length: 1275
  • essential: unknown other strains

Accession numbers[edit source | edit]

Phenotype[edit source | edit]

  • Share your knowledge and add information here. [edit]

DNA sequence[edit source | edit]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    GTGAGTACAGAACCATTAGCATCGAGAATGCGCCCAAAAAATATAGATGAAATCATTTCC
    CAACAACATTTAGTTGGACCAAGAGGCATTATCAGAAGAATGGTTGATACAAAAAAATTA
    ACTTCAATGATTTTTTATGGTCCACCTGGTATAGGCAAAACAAGTATTGCCAAAGCAATT
    TCGGGCAGTACGCAATATAAATTCAGACAATTGAATGCTGTAACTAACACTAAAAAAGAT
    ATGCAACTTGTTGTTGAAGAAGCTAAAATGTCTGGTCAAGTTATCTTGTTATTAGATGAA
    ATACATCGACTAGATAAAGCTAAACAAGACTTTTTATTACCTCATTTAGAAAATGGCAAA
    ATCGTCTTGATCGGTGCTACAACTTCAAATCCTTATCATGCTATCAATCCAGCGATTCGT
    TCAAGAGCGCAAATTTTCGAGTTATATCCTTTAAATGACGAAGATGTGCGCCAAGCGTTA
    ACTCGTGCAATAGAAGATGATGAGAATGGTTTGAAAACATATCAACCCAAAATTGATGAA
    GATGCCATGACCTACTTTTCTACACAAAGCCAAGGTGATGTTCGTAGTGCGTTAAATGCA
    TTGGAATTAGCTGTATTAAGCGCAGATAATGACAAAGACGGTTATCGACATGTTACATTG
    CAAGATGCTAAAGACTGTTTACAAAAAGGTGCATTTGTAAGTGACAAGGATGGTGACATG
    CATTACGATGTTATGAGCGCTTTCCAAAAATCTATCCGTGGTAGCGACGTCAATGCCGCT
    TTACATTATTTAGCACGATTAATTGAAGCTGGAGATTTACCTACAATAGTTCGACGATTA
    CTTGTAATTAGCTATGAGGATATAGGCTTAGCCTCACCTAATGCTGGTCAGAGAACACTT
    GCTGCTATTGAATCAGCAGAACGTCTAGGTTTACCAGAAGCTAGAATTCCACTAAGCCAA
    GCAGTAATCGAACTATGCTTATCACCTAAGTCAAATTCAGCAATGAGTGCCATTGATAGT
    GCATTGTCCGATATTAGAAACGGTCATGTGGGCCAAATTCCAAACCATTTAAAAGATGGA
    CATTATCAAGGTGCTAAAGATCTAGGCCGATCTATTGGTTACAAATATCCACACCAATAT
    GTTAATGGCTATGTTTCACAGCAATATTTACCTGATAAACTAAAAAACAAAATTTATTAC
    GAACCAAAAACGACATCTAAAAGTGAACAACAACTCAAAGAAATATATAACAACTTACTT
    AAACAAAGGCCGTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1275

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SACOL1682 [new locus tag: SACOL_RS08580 ]
  • symbol: SACOL1682
  • description: recombination factor protein RarA
  • length: 424
  • theoretical pI: 8.51483
  • theoretical MW: 47250.5
  • GRAVY: -0.452123

Function[edit source | edit]

  • reaction:
  • TIGRFAM:
    Genetic information processingDNA metabolismDNA replication, recombination, and repairDNA polymerase III, subunit gamma and tau (TIGR02397; EC 2.7.7.7; HMM-score: 68.7)
    Cellular processesCellular processesSporulation and germinationATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 47.7)
    Genetic information processingProtein fateDegradation of proteins, peptides, and glycopeptidesATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 47.7)
    Genetic information processingDNA metabolismDNA replication, recombination, and repairHolliday junction DNA helicase RuvB (TIGR00635; EC 3.6.4.12; HMM-score: 45.1)
    Cellular processesCellular processesSporulation and germinationATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 34.7)
    Genetic information processingProtein fateDegradation of proteins, peptides, and glycopeptidesATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 34.7)
    Genetic information processingDNA metabolismDNA replication, recombination, and repairDNA polymerase III, delta' subunit (TIGR00678; EC 2.7.7.7; HMM-score: 34)
    Genetic information processingDNA metabolismDNA replication, recombination, and repairDnaA regulatory inactivator Hda (TIGR03420; HMM-score: 30.4)
    Genetic information processingDNA metabolismDNA replication, recombination, and repairorc1/cdc6 family replication initiation protein (TIGR02928; HMM-score: 25.6)
    Genetic information processingProtein fateDegradation of proteins, peptides, and glycopeptidesATP-dependent Clp protease ATP-binding subunit ClpA (TIGR02639; HMM-score: 25.1)
    Genetic information processingProtein fateDegradation of proteins, peptides, and glycopeptidesendopeptidase La (TIGR00763; EC 3.4.21.53; HMM-score: 23.6)
    Genetic information processingProtein fateProtein folding and stabilizationATP-dependent chaperone protein ClpB (TIGR03346; HMM-score: 20.8)
    AAA family ATPase, CDC48 subfamily (TIGR01243; HMM-score: 19.9)
    Cellular processesCellular processesCell divisionATP-dependent metallopeptidase HflB (TIGR01241; EC 3.4.24.-; HMM-score: 18.7)
    Genetic information processingProtein fateDegradation of proteins, peptides, and glycopeptidesATP-dependent metallopeptidase HflB (TIGR01241; EC 3.4.24.-; HMM-score: 18.7)
    26S proteasome subunit P45 family (TIGR01242; HMM-score: 18.5)
    Genetic information processingProtein fateDegradation of proteins, peptides, and glycopeptidesproteasome ATPase (TIGR03689; EC 3.6.4.8; HMM-score: 18)
    putative cytidylate kinase (TIGR02173; EC 2.7.4.14; HMM-score: 16.5)
    Genetic information processingProtein fateProtein and peptide secretion and traffickingtype VII secretion AAA-ATPase EccA (TIGR03922; HMM-score: 16)
    Genetic information processingMobile and extrachromosomal element functionsProphage functionsphage nucleotide-binding protein (TIGR01618; HMM-score: 14.9)
    Cellular processesCellular processesSporulation and germinationstage V sporulation protein K (TIGR02881; HMM-score: 14.9)
    Cellular processesCellular processesOthergas vesicle protein GvpN (TIGR02640; HMM-score: 14.8)
    Genetic information processingDNA metabolismDNA replication, recombination, and repaircheckpoint protein rad24 (TIGR00602; HMM-score: 13.9)
    Genetic information processingDNA metabolismDNA replication, recombination, and repairDNA replication and repair protein RecF (TIGR00611; HMM-score: 13.9)
    MetabolismPurines, pyrimidines, nucleosides, and nucleotidesNucleotide and nucleoside interconversionsadenylate kinase (TIGR01351; EC 2.7.4.-; HMM-score: 12.9)
    Genetic information processingProtein fateDegradation of proteins, peptides, and glycopeptidesputative ATP-dependent protease (TIGR00764; HMM-score: 12.4)
    Unknown functionGeneralMg chelatase-like protein (TIGR00368; HMM-score: 11.7)
  • TheSEED:  
    Sulfur MetabolismOrganic sulfur assimilationAt5g37530 (CsdL protein family) Uncharacterized ATPase (AAA family) associated with cysteine desulfurase 
  • PFAM:
    post-AAA (CL0604) MgsA_C; MgsA AAA+ ATPase C terminal (PF12002; HMM-score: 216.6)
    no clan definedAAA_assoc_2; AAA C-terminal domain (PF16193; HMM-score: 85.6)
    P-loop_NTPase (CL0023) AAA; ATPase family associated with various cellular activities (AAA) (PF00004; HMM-score: 61.4)
    RuvB_N; Holliday junction DNA helicase ruvB N-terminus (PF05496; HMM-score: 51.4)
    AAA_14; AAA domain (PF13173; HMM-score: 28.6)
    Sigma54_activat; Sigma-54 interaction domain (PF00158; HMM-score: 28.4)
    AAA_5; AAA domain (dynein-related subfamily) (PF07728; HMM-score: 25.6)
    AAA_16; AAA ATPase domain (PF13191; HMM-score: 24.5)
    Mg_chelatase; Magnesium chelatase, subunit ChlI (PF01078; HMM-score: 20.8)
    DNA_pol3_delta2; DNA polymerase III, delta subunit (PF13177; HMM-score: 20.6)
    TIP49; TIP49 C-terminus (PF06068; HMM-score: 19.8)
    AAA_22; AAA domain (PF13401; HMM-score: 19.6)
    Sigma54_activ_2; Sigma-54 interaction domain (PF14532; HMM-score: 19.3)
    ABC_tran; ABC transporter (PF00005; HMM-score: 19.3)
    Rad17; Rad17 cell cycle checkpoint protein (PF03215; HMM-score: 17.8)
    AAA_18; AAA domain (PF13238; HMM-score: 16.7)
    AAA_19; AAA domain (PF13245; HMM-score: 16.6)
    IstB_IS21; IstB-like ATP binding protein (PF01695; HMM-score: 15.8)
    AAA_3; ATPase family associated with various cellular activities (AAA) (PF07726; HMM-score: 15.5)
    AAA_24; AAA domain (PF13479; HMM-score: 14.1)
    RNA_helicase; RNA helicase (PF00910; HMM-score: 14.1)
    no clan definedLXG; LXG domain of WXG superfamily (PF04740; HMM-score: 14)
    P-loop_NTPase (CL0023) Parvo_NS1; Parvovirus non-structural protein NS1 (PF01057; HMM-score: 13.8)
    NB-ARC; NB-ARC domain (PF00931; HMM-score: 13.1)
    ATPase_2; ATPase domain predominantly from Archaea (PF01637; HMM-score: 13)
    AAA_2; AAA domain (Cdc48 subfamily) (PF07724; HMM-score: 12.7)
    RsgA_GTPase; RsgA GTPase (PF03193; HMM-score: 12.3)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:
    SACOL2657(arcA)arginine deiminase  [1] (data from MRSA252)
    SACOL1637(dnaK)molecular chaperone DnaK  [1] (data from MRSA252)
    SACOL2117(fbaA)fructose-bisphosphate aldolase  [1] (data from MRSA252)
    SACOL0593(fusA)elongation factor G  [1] (data from MRSA252)
    SACOL1477(ilvA1)threonine dehydratase  [1] (data from MRSA252)
    SACOL1102(pdhA)pyruvate dehydrogenase complex E1 component subunit alpha  [1] (data from MRSA252)
    SACOL1103(pdhB)pyruvate dehydrogenase complex E1 component subunit beta  [1] (data from MRSA252)
    SACOL1104(pdhC)branched-chain alpha-keto acid dehydrogenase E2  [1] (data from MRSA252)
    SACOL1105(pdhD)dihydrolipoamide dehydrogenase  [1] (data from MRSA252)
    SACOL1745(pyk)pyruvate kinase  [1] (data from MRSA252)
    SACOL0584(rplA)50S ribosomal protein L1  [1] (data from MRSA252)
    SACOL2239(rplC)50S ribosomal protein L3  [1] (data from MRSA252)
    SACOL2220(rplO)50S ribosomal protein L15  [1] (data from MRSA252)
    SACOL1257(rplS)50S ribosomal protein L19  [1] (data from MRSA252)
    SACOL1702(rplU)50S ribosomal protein L21  [1] (data from MRSA252)
    SACOL2222(rpsE)30S ribosomal protein S5  [1] (data from MRSA252)
    SACOL0438(ssb2)single-stranded DNA-binding protein  [1] (data from MRSA252)
    SACOL1449(sucA)2-oxoglutarate dehydrogenase E1 component  [1] (data from MRSA252)
    SACOL1448(sucB)dihydrolipoamide succinyltransferase  [1] (data from MRSA252)
    SACOL0594(tuf)elongation factor Tu  [1] (data from MRSA252)
    SACOL0944NADH dehydrogenase  [1] (data from MRSA252)
    SACOL1759universal stress protein  [1] (data from MRSA252)

Localization[edit source | edit]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • 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
    • Ymax: 0.143
    • Ymax_pos: 60
    • Cmax: 0.149
    • Cmax_pos: 60
    • Smax: 0.171
    • Smax_pos: 1
    • Smean: 0.111
    • D: 0.131
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MSTEPLASRMRPKNIDEIISQQHLVGPRGIIRRMVDTKKLTSMIFYGPPGIGKTSIAKAISGSTQYKFRQLNAVTNTKKDMQLVVEEAKMSGQVILLLDEIHRLDKAKQDFLLPHLENGKIVLIGATTSNPYHAINPAIRSRAQIFELYPLNDEDVRQALTRAIEDDENGLKTYQPKIDEDAMTYFSTQSQGDVRSALNALELAVLSADNDKDGYRHVTLQDAKDCLQKGAFVSDKDGDMHYDVMSAFQKSIRGSDVNAALHYLARLIEAGDLPTIVRRLLVISYEDIGLASPNAGQRTLAAIESAERLGLPEARIPLSQAVIELCLSPKSNSAMSAIDSALSDIRNGHVGQIPNHLKDGHYQGAKDLGRSIGYKYPHQYVNGYVSQQYLPDKLKNKIYYEPKTTSKSEQQLKEIYNNLLKQRP

Experimental data[edit source | edit]

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

  • SACOL1682 no polycistronic organisation predicted

Regulation[edit source | edit]

  • sigma factor:
  • regulator:

Transcription pattern[edit source | edit]

Protein synthesis (provided by Aureolib)[edit source | edit]

Protein stability[edit source | edit]

  • half-life: no data available

Biological Material[edit source | edit]

Mutants[edit source | edit]

Expression vector[edit source | edit]

lacZ fusion[edit source | edit]

GFP fusion[edit source | edit]

two-hybrid system[edit source | edit]

FLAG-tag construct[edit source | edit]

Antibody[edit source | edit]

Other Information[edit source | edit]

You are kindly invited to share additional interesting facts.

Literature[edit source | edit]

References[edit source | edit]

  1. 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 1.20 1.21 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J. Proteome Res.: 2011, 10(3);1139-50
    [PubMed:21166474] [WorldCat.org] [DOI] (I p)
  2. Dörte Becher, Kristina Hempel, Susanne Sievers, Daniela Zühlke, Jan Pané-Farré, Andreas Otto, Stephan Fuchs, Dirk Albrecht, Jörg Bernhardt, Susanne Engelmann, Uwe Völker, Jan Maarten van Dijl, Michael Hecker
    A proteomic view of an important human pathogen--towards the quantification of the entire Staphylococcus aureus proteome.
    PLoS ONE: 2009, 4(12);e8176
    [PubMed:19997597] [WorldCat.org] [DOI] (I e)
  3. Kristina Hempel, Florian-Alexander Herbst, Martin Moche, Michael Hecker, Dörte Becher
    Quantitative proteomic view on secreted, cell surface-associated, and cytoplasmic proteins of the methicillin-resistant human pathogen Staphylococcus aureus under iron-limited conditions.
    J. Proteome Res.: 2011, 10(4);1657-66
    [PubMed:21323324] [WorldCat.org] [DOI] (I p)
  4. Andreas Otto, Jan Maarten van Dijl, Michael Hecker, Dörte Becher
    The Staphylococcus aureus proteome.
    Int. J. Med. Microbiol.: 2014, 304(2);110-20
    [PubMed:24439828] [WorldCat.org] [DOI] (I p)

Relevant publications[edit source | edit]