PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159JSNZLGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 10-JUN-2013

⊟Summary

• organism: Staphylococcus aureus USA300_FPR3757
• locus tag: SAUSA300_1632 [new locus tag: SAUSA300_RS08905 ]
• pan locus tag^?: SAUPAN004308000
• symbol: nrdR
• pan gene symbol^?: nrdR
• synonym:
• product: transcriptional regulator NrdR

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SAUSA300_1632 [new locus tag: SAUSA300_RS08905 ]
• symbol: nrdR
• product: transcriptional regulator NrdR
• replicon: chromosome
• strand: -
• coordinates: 1787224..1787694
• length: 471
• essential: unknown other strains

⊟Accession numbers

• Gene ID: 3915033 NCBI
• RefSeq: YP_494327 NCBI
• BioCyc: see SAUSA300_RS08905
• MicrobesOnline: 1293147 MicrobesOnline

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
  61
  121
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  421
  
  ATGAAATGCCCGAAATGTAATTCTACACAATCTAAAGTTGTAGATTCAAGGCATGCCGAT
  GAATTAAATGCCATTCGAAGACGAAGAGAATGTGAAAATTGTGGAACACGTTTCACTACA
  TTTGAACATATCGAAGTTAGTCAGCTTATAGTTGTGAAAAAAGATGGCACAAGAGAGCAG
  TTTTCAAGAGAAAAGATACTTAATGGACTTGTGCGTTCTTGTGAGAAACGACCAGTTAGA
  TATCAACAACTTGAAGACATAACTAACAAGGTTGAATGGCAATTACGAGATGAAGGTCAT
  ACGGAAGTGTCTTCACGAGATATAGGTGAACACGTTATGAACTTGTTAATGCATGTTGAT
  CAAGTTTCATATGTTAGATTTGCATCAGTCTATAAAGAATTTAAAGATGTTGATCAATTG
  TTAGCATCGATGCAAGGGATTTTAAGCGAAAACAAACGGAGTGATGCTTAA
  60
  120
  180
  240
  300
  360
  420
  471
  

⊟Protein

⊟General

• locus tag: SAUSA300_1632 [new locus tag: SAUSA300_RS08905 ]
• symbol: NrdR
• description: transcriptional regulator NrdR
• length: 156
• theoretical pI: 7.89688
• theoretical MW: 18203.5
• GRAVY: -0.744872

⊟Function

• TIGRFAM:
  Signal transduction Regulatory functions DNA interactions transcriptional regulator NrdR (TIGR00244; HMM-score: 187.7)
  and 4 more
  Cys-rich peptide, TIGR04165 family (TIGR04165; HMM-score: 16.4)
  Signal transduction Regulatory functions DNA interactions putative regulatory protein, FmdB family (TIGR02605; HMM-score: 14.6)
  MJ0042 family finger-like domain (TIGR02098; HMM-score: 12)
  cxxc_20_cxxc protein (TIGR04104; HMM-score: 8.7)
• TheSEED  :
  • Ribonucleotide reductase transcriptional regulator NrdR
  Nucleosides and Nucleotides Nucleosides and Nucleotides - no subcategory Ribonucleotide reduction  Ribonucleotide reductase transcriptional regulator NrdR
• PFAM:
  no clan defined ATP-cone; ATP cone domain (PF03477; HMM-score: 77.7)
  Zn_Beta_Ribbon (CL0167) Zn_ribbon_NrdR; Transcriptional repressor NrdR-like, N-terminal domain (PF22811; HMM-score: 72.3)
  and 18 more
  C2H2-zf (CL0361) zf-DBF; DBF zinc finger (PF07535; HMM-score: 19.5)
  Zn_Beta_Ribbon (CL0167) Zn_Ribbon_TF; TFIIB zinc-binding (PF08271; HMM-score: 16.3)
  no clan defined DUF7117; Family of unknown function (DUF7117) (PF23430; HMM-score: 15.4)
  Zn_Beta_Ribbon (CL0167) Zn_ribbon_IS1595; Transposase zinc-ribbon domain (PF12760; HMM-score: 15)
  Zn_ribbon_GRF_2; GRF-like zinc ribbon domain (PF23549; HMM-score: 14.7)
  Zn_ribbon_8; Zinc ribbon domain (PF09723; HMM-score: 14.1)
  Zn_ribbon_5; zinc-ribbon domain (PF13719; HMM-score: 14.1)
  DUF7129; Domain of unknown function (DUF7129) (PF23455; HMM-score: 13.3)
  Zn_ribbon_Elf1; Transcription elongation factor Elf1 like (PF05129; HMM-score: 13.1)
  Zn_ribbon_TFIIS; Transcription factor S-II (TFIIS) (PF01096; HMM-score: 12.6)
  Ogr_Delta; Ogr/Delta-like zinc finger (PF04606; HMM-score: 11.9)
  no clan defined DUF7351; Domain of unknown function (DUF7351) (PF24042; HMM-score: 11.7)
  C2H2-zf (CL0361) zf-C2H2; Zinc finger, C2H2 type (PF00096; HMM-score: 11.4)
  Zn_Beta_Ribbon (CL0167) Zn_ribbon_PaaD; PaaD zinc beta ribbon domain (PF23451; HMM-score: 11.3)
  Zn_ribbon_4; zinc-ribbon domain (PF13717; HMM-score: 10.7)
  Zn_Ribbon_1; zinc-ribbon domain (PF13240; HMM-score: 9.7)
  no clan defined RUBY_RBDX; Rubrerythrin, rubredoxin-like domain (PF21349; HMM-score: 9.3)
  HEWD; HEWD domain (PF20576; HMM-score: 8.7)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors: Zn²⁺
• effector: Deoxyribonucleotides
• genes regulated by NrdR, TF important in Deoxyribonucleotide biosynthesisRegPrecise

  repression

  nrdI > nrdE* > nrdF

  nrdG < nrdD

  transcription units transferred from N315 data RegPrecise

⊟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: 0.9776
  • Cytoplasmic Membrane Score: 0.0025
  • Cell wall & surface Score: 0.0001
  • Extracellular Score: 0.0198
• 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): 0.016516
  • TAT(Tat/SPI): 0.00067
  • LIPO(Sec/SPII): 0.005624
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI: 87162437 NCBI
• RefSeq: YP_494327 NCBI
• UniProt: Q2FG51 UniProt

⊟Protein sequence

• MKCPKCNSTQSKVVDSRHADELNAIRRRRECENCGTRFTTFEHIEVSQLIVVKKDGTREQFSREKILNGLVRSCEKRPVRYQQLEDITNKVEWQLRDEGHTEVSSRDIGEHVMNLLMHVDQVSYVRFASVYKEFKDVDQLLASMQGILSENKRSDA

⊟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: dnaI < SAUSA300_1631 < nrdR

⊟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