⊟Summary[edit | edit source]

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

NCBI: 02-MAR-2017

⊟Summary

• organism: Staphylococcus aureus N315
locus tag: SA_RS02850 [old locus tag: SA0484 ]
pan locus tag^?: SAUPAN002292000
symbol: SA_RS02850
pan gene symbol^?: radA
• synonym:
• product: DNA repair protein RadA

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SA_RS02850 [old locus tag: SA0484 ]
• symbol: SA_RS02850
• product: DNA repair protein RadA
• replicon: chromosome
• strand: +
• coordinates: 565627..566991
• length: 1365
• essential: no DEG other strains

⊟Accession numbers

• Location: NC_002745 (565627..566991) NCBI
• BioCyc: SA_RS02850 BioCyc
• MicrobesOnline: see SA0484

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
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  1021
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  1201
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  1321
  
  TTGGCCAAGAAAAAAGTGATTTTTGAATGTATGGCTTGTGGTTATCAATCTCCTAAATGG
  ATGGGGAAATGTCCTAATTGTGGCGCTTGGAATCAAATGGAGGAAATTGTTGAAAAAGCA
  GCCAATCCTAAACATGGAGTTAAAACCAAGGAATTAGCAGGTAAAGTACAAAAATTAAAT
  AGTATTAAACATGAAACAACGCCGAGAGTGTTAACAGATTCAGCAGAATTCAACCGTGTA
  TTAGGTGGAGGTATTGTGAGCGGATCGTTAGTACTTATTGGTGGGGATCCAGGTATTGGT
  AAGTCAACGTTACTTTTACAAATTTGTGCATCGTTATCTCAAAAGAAAAAAGTACTATAT
  ATTACTGGAGAAGAATCGCTTAGTCAGACTAAATTACGTGCAGAGCGATTAGATGAAGAT
  TCAAGTGAATTGCAAGTATTAGCTGAAACAGATCTTGAAGTTATTTATCAAACAGTAAAA
  GAAGAACAACCTGATTTATTAGTAGTGGATTCGATTCAAACAATATATCATCCTGAAATC
  AGCTCTGCGCCAGGTTCTGTTTCACAAGTTCGTGAAAGTACACAAAGTTTAATGAATATT
  GCTAAACAAATGAACATTGCAACTTTTATAGTGGGTCATGTAACGAAAGAAGGTCAAATT
  GCTGGCCCAAGATTGCTAGAACACATGGTTGATACTGTGCTTTATTTTGAAGGCGATGAA
  CACCACGCATATCGAATTTTGCGAGCTGTTAAAAACCGTTTTGGTTCAACGAATGAAATG
  GGAATCTTCGAAATGAAGCAAAGTGGATTAAAAGGTGTAAATAATCCATCTGAAATGTTT
  TTAGAAGAACGTTCAACAAATGTTCCAGGTTCAACAATTGTTGCAACCATGGAGGGAACC
  AGACCACTTTTAATAGAAGTTCAAGCGCTGGTAACTCCAACGACTTTTAACAATCCGAGA
  CGAATGGCAACAGGGATTGATCATAATCGATTAAGTTTGTTGATGGCTGTTTTGGAAAAG
  AAAGAAAATTATCTATTACAACAACAAGATGCTTATATCAAAGTAGCTGGCGGTGTAAAG
  TTAACGGAGCCAGCAGTTGATTTAAGTGTAATTGTAGCAACTGCATCTAGCTTTAAAGAT
  AAAGCTGTCGACGGATTAGATTGCTATATTGGAGAAGTTGGTTTAACGGGTGAGGTACGT
  CGTGTATCTCGGATAGAACAACGCGTGCAAGAGGCTGCAAAACTAGGTTTCAAACGTGTA
  ATTATTCCTAAAAATAATATAGGCGGATGGACATATCCTGAAGGTATACAAGTAATAGGT
  GTAACTACTGTACATGAAGCATTGTCATTTGCTCTTCATTCATAA
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⊟Protein

⊟General

• locus tag: SA_RS02850 [old locus tag: SA0484 ]
• symbol: SA_RS02850
• description: DNA repair protein RadA
• length: 454
• theoretical pI: 7.05095
• theoretical MW: 49835
• GRAVY: -0.17467

⊟Function

• ⊞⊞TIGRFAM:
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA repair protein RadA (TIGR00416; HMM-score: 666.5)
  and 25 more
  Cellular processes Cellular processes Sporulation and germination ATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 58.9)
  Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 58.9)
  DNA repair and recombination protein RadB (TIGR02237; HMM-score: 51.9)
  KaiC domain protein, PAE1156 family (TIGR03881; HMM-score: 40.2)
  Cellular processes Cellular processes Sporulation and germination ATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 35.5)
  Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 35.5)
  Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides putative ATP-dependent protease (TIGR00764; HMM-score: 34.9)
  KaiC domain protein, Ph0284 family (TIGR03877; HMM-score: 30.4)
  Genetic information processing Mobile and extrachromosomal element functions Prophage functions phage replicative helicase, DnaB family (TIGR03600; HMM-score: 27.1)
  Genetic information processing DNA metabolism DNA replication, recombination, and repair protein RecA (TIGR02012; HMM-score: 25.9)
  Genetic information processing DNA metabolism DNA replication, recombination, and repair replicative DNA helicase (TIGR00665; EC 3.6.4.12; HMM-score: 24.8)
  KaiC domain protein, AF_0351 family (TIGR03880; HMM-score: 24.6)
  Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides endopeptidase La (TIGR00763; EC 3.4.21.53; HMM-score: 23.9)
  meiotic recombinase Dmc1 (TIGR02238; HMM-score: 21.8)
  DNA repair protein RAD51 (TIGR02239; HMM-score: 20)
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA repair and recombination protein RadA (TIGR02236; HMM-score: 19.9)
  Unknown function General Mg chelatase-like protein (TIGR00368; HMM-score: 19)
  Hypothetical proteins Conserved conserved hypothetical protein (TIGR02653; HMM-score: 16.8)
  Genetic information processing DNA metabolism DNA replication, recombination, and repair DnaA regulatory inactivator Hda (TIGR03420; HMM-score: 15.7)
  Genetic information processing Protein fate Protein and peptide secretion and trafficking heme ABC exporter, ATP-binding protein CcmA (TIGR01189; EC 3.6.3.41; HMM-score: 13.9)
  Metabolism Transport and binding proteins Other heme ABC exporter, ATP-binding protein CcmA (TIGR01189; EC 3.6.3.41; HMM-score: 13.9)
  Cellular processes Cellular processes Other circadian clock protein KaiC (TIGR02655; EC 2.7.11.1; HMM-score: 13.9)
  Cellular processes Cellular processes Toxin production and resistance putative bacteriocin export ABC transporter, lactococcin 972 group (TIGR03608; HMM-score: 13.4)
  Metabolism Transport and binding proteins Unknown substrate putative bacteriocin export ABC transporter, lactococcin 972 group (TIGR03608; HMM-score: 13.4)
  Metabolism Transport and binding proteins Other pleiotropic drug resistance family protein (TIGR00956; HMM-score: 9.7)
• TheSEED: see SA0484
• ⊞⊞PFAM:
  P-loop_NTPase (CL0023) AAA_25; AAA domain (PF13481; HMM-score: 57.5)
  ATPase; KaiC (PF06745; HMM-score: 56.4)
  Zn_Beta_Ribbon (CL0167) Zn_ribbon_LapB; Rubredoxin metal binding domain (PF18073; HMM-score: 47.2)
  and 31 more
  P-loop_NTPase (CL0023) DnaB_C; DnaB-like helicase C terminal domain (PF03796; HMM-score: 30.2)
  S5 (CL0329) ChlI; Subunit ChlI of Mg-chelatase (PF13541; HMM-score: 29.1)
  P-loop_NTPase (CL0023) Rad51; Rad51 (PF08423; HMM-score: 26.5)
  S5 (CL0329) Lon_C; Lon protease (S16) C-terminal proteolytic domain (PF05362; HMM-score: 26)
  P-loop_NTPase (CL0023) AAA_16; AAA ATPase domain (PF13191; HMM-score: 25.6)
  AAA_22; AAA domain (PF13401; HMM-score: 24.7)
  AAA_14; AAA domain (PF13173; HMM-score: 22.9)
  RecA; recA bacterial DNA recombination protein (PF00154; HMM-score: 22.2)
  AAA_24; AAA domain (PF13479; HMM-score: 22.2)
  AAA; ATPase family associated with various cellular activities (AAA) (PF00004; HMM-score: 21.7)
  ABC_tran; ABC transporter (PF00005; HMM-score: 21.7)
  SLFN-g3_helicase; Schlafen group 3, DNA/RNA helicase domain (PF09848; HMM-score: 21)
  AAA_5; AAA domain (dynein-related subfamily) (PF07728; HMM-score: 20.8)
  GvpD_P-loop; GvpD gas vesicle protein, P-loop domain (PF07088; HMM-score: 20.4)
  nSTAND3; Novel STAND NTPase 3 (PF20720; HMM-score: 20.3)
  AAA_19; AAA domain (PF13245; HMM-score: 19.6)
  Zn_Beta_Ribbon (CL0167) DUF7129; Domain of unknown function (DUF7129) (PF23455; HMM-score: 19.5)
  P-loop_NTPase (CL0023) NTPase_1; NTPase (PF03266; HMM-score: 18.3)
  CbiA; CobQ/CobB/MinD/ParA nucleotide binding domain (PF01656; HMM-score: 18.2)
  NACHT; NACHT domain (PF05729; HMM-score: 17.5)
  NPHP3_N; Nephrocystin 3, N-terminal (PF24883; HMM-score: 16.6)
  ATPase_2; ATPase domain predominantly from Archaea (PF01637; HMM-score: 16.5)
  MCM; MCM P-loop domain (PF00493; HMM-score: 15.8)
  cobW; CobW/HypB/UreG, nucleotide-binding domain (PF02492; HMM-score: 15.5)
  TIP49; TIP49 P-loop domain (PF06068; HMM-score: 15.5)
  KTI12; Chromatin associated protein KTI12 (PF08433; HMM-score: 14.1)
  ResIII; Type III restriction enzyme, res subunit (PF04851; HMM-score: 13.9)
  DAP3; Mitochondrial ribosomal death-associated protein 3 (PF10236; HMM-score: 12.6)
  Zn_Beta_Ribbon (CL0167) DZR; Double zinc ribbon (PF12773; HMM-score: 12.2)
  Zn_ribbon_RPB9; RNA polymerases M/15 Kd subunit (PF02150; HMM-score: 10.5)
  no clan defined RUBY_RBDX; Rubrerythrin, rubredoxin-like domain (PF21349; HMM-score: 10.3)

⊟Structure, modifications & cofactors

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

⊟Localization

• ⊞⊞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: 0.959
  • Cytoplasmic Membrane Score: 0.0192
  • Cell wall & surface Score: 0.0004
  • Extracellular Score: 0.0214
• LocateP:
• ⊞⊞SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.089376
  • TAT(Tat/SPI): 0.00071
  • LIPO(Sec/SPII): 0.01793
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI: 447007963 NCBI
• RefSeq: WP_001085219 NCBI
• UniProt: see SA0484

⊟Protein sequence

• MAKKKVIFECMACGYQSPKWMGKCPNCGAWNQMEEIVEKAANPKHGVKTKELAGKVQKLNSIKHETTPRVLTDSAEFNRVLGGGIVSGSLVLIGGDPGIGKSTLLLQICASLSQKKKVLYITGEESLSQTKLRAERLDEDSSELQVLAETDLEVIYQTVKEEQPDLLVVDSIQTIYHPEISSAPGSVSQVRESTQSLMNIAKQMNIATFIVGHVTKEGQIAGPRLLEHMVDTVLYFEGDEHHAYRILRAVKNRFGSTNEMGIFEMKQSGLKGVNNPSEMFLEERSTNVPGSTIVATMEGTRPLLIEVQALVTPTTFNNPRRMATGIDHNRLSLLMAVLEKKENYLLQQQDAYIKVAGGVKLTEPAVDLSVIVATASSFKDKAVDGLDCYIGEVGLTGEVRRVSRIEQRVQEAAKLGFKRVIIPKNNIGGWTYPEGIQVIGVTTVHEALSFALHS

⊟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

⊟Regulation

• regulator:

⊟Transcription pattern

• S.aureus Expression Data Browser: data available for NCTC8325

⊟Protein synthesis (provided by Aureolib)

• Aureolib: data available for COL

⊟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