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

FunGene: 08-OCT-2024

⊟Summary

• organism: Staphylococcus aureus JSNZ
• locus tag: JSNZ_002097
• pan locus tag^?: SAUPAN005432000
• symbol: JSNZ_002097
• pan gene symbol^?: pdp
• synonym: deoA
• product: pyrimidine-nucleoside phosphorylase

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: JSNZ_002097
• symbol: JSNZ_002097
• product: pyrimidine-nucleoside phosphorylase
• replicon: chromosome
• strand: -
• coordinates: 2108845..2110146
• length: 1302
• essential: unknown other strains

⊟Accession numbers

• Gene ID:
• RefSeq:
• BioCyc:
• MicrobesOnline:

⊟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
  961
  1021
  1081
  1141
  1201
  1261
  
  ATGAGAATGATAGACATTATTGAGAAAAAGCGTGACGGTCATACACTAACAACGGAAGAA
  ATTAATTTCTTTATTGACGGCTATGTTAAAGGGGATATTCCTGATTATCAAGCATCAAGT
  TTAGCAATGGCGATTTATTTCCAAGATATGAATGATGATGAGCGTGCAGCATTAACGATG
  GCTATGGTTAATTCTGGTGATATGATAGATTTGAGTGATATTAAAGGTGTCAAAGTAGAT
  AAGCACTCAACAGGTGGTGTAGGAGATACAACTACATTGGTTTTAGCACCATTAGTAGCA
  GCTGTAGATGTTCCTGTTGCAAAAATGAGTGGGCGTGGATTAGGTCATACAGGTGGTACG
  ATTGATAAATTAGAAGCAATTGATGGTTTTCATGTTGAAATAGATGAAGCAACATTTGTG
  AAATTGGTTAATGAAAATAAAGTGGCAGTTGTAGGACAATCAGGAAATTTAACTCCTGCA
  GACAAAAAATTATATGCCTTAAGGGATGTTACTGGTACTGTCAATTCAATACCATTAATT
  GCCTCTTCAATTATGAGTAAAAAGATTGCTGCTGGTGCAGATGCAATTGTATTAGATGTA
  AAAACTGGTAGCGGTGCATTTATGAAAACATTAGAAGATGCTGAAGCATTAGCGCACGCA
  ATGGTACGTATTGGTAATAATGTGGGACGTAATACGATGGCGATTATTTCTGATATGAAT
  CAGCCACTTGGACGTGCGATTGGCAATGCGCTTGAGTTACAAGAAGCAATTGATACGTTG
  AAAGGACAAGGTCCGAAAGATTTAACAGAACTTGTATTAACATTAGGTTCTCAAATGGTT
  GTACTTGCAAACAAAGCTGAAACGCTTGAAGAAGCGAGAGCGTTGCTAATTGAGGCAATT
  GATTCAGGTGCAGCATTAGAAAAATTCAAAACATTTATTAAAAACCAAGGTGGCGACGAA
  ACCGTTATTGACCATCCAGAGCGTTTGCCACAAGCTCAATATCAAATTGAATATAAAGCT
  AAAAAATCAGGTTATGTGACTGAGTTAGTCTCTAACGATATAGGTGTCGCTTCGATGATG
  TTAGGAGCGGGACGTTTAACAAAAGAGGATGATATTGATTTAGCGGTTGGTATTGTTTTA
  AATAAAAAAATTGGTGATAAAGTAGAAGAAGGAGAATCATTATTAACGATTCACAGTAAT
  CGCCAAGATGTAGACGATGTTGTTAAAAAATTAGATTCAAGCATAACAATTGCTGATCAT
  GTTGTATCGCCTACATTAATTCATAAAATCATTACAGAATAG
  60
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  1020
  1080
  1140
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  1260
  1302
  

⊟Protein

⊟General

• locus tag: JSNZ_002097
• symbol: JSNZ_002097
• description: pyrimidine-nucleoside phosphorylase
• length: 433
• theoretical pI: 4.63359
• theoretical MW: 46366.8
• GRAVY: -0.0297921

⊟Function

• reaction:
  EC 2.4.2.2?  ExPASy
  Pyrimidine-nucleoside phosphorylase Uridine + phosphate = uracil + alpha-D-ribose 1-phosphate Thymidine + phosphate = thymine + 2-deoxy-alpha-D-ribose 1-phosphate 2'-deoxyuridine + phosphate = uracil + 2-deoxy-alpha-D-ribose 1-phosphate
• TIGRFAM:
  Metabolism Purines, pyrimidines, nucleosides, and nucleotides Other pyrimidine-nucleoside phosphorylase (TIGR02644; EC 2.4.2.2; HMM-score: 600.3)
  and 4 more
  Metabolism Purines, pyrimidines, nucleosides, and nucleotides Other thymidine phosphorylase (TIGR02643; EC 2.4.2.4; HMM-score: 453.1)
  putative thymidine phosphorylase (TIGR02645; EC 2.4.2.4; HMM-score: 240.5)
  AMP phosphorylase (TIGR03327; EC 2.4.-.-; HMM-score: 236.9)
  Metabolism Amino acid biosynthesis Aromatic amino acid family anthranilate phosphoribosyltransferase (TIGR01245; EC 2.4.2.18; HMM-score: 36.5)
• TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
• PFAM:
  no clan defined Glycos_transf_3; Glycosyl transferase family, a/b domain (PF00591; HMM-score: 180.7)
  and 4 more
  Hybrid (CL0105) PYNP_C; Pyrimidine nucleoside phosphorylase C-terminal domain (PF07831; HMM-score: 94.9)
  no clan defined Glycos_trans_3N; Glycosyl transferase family, helical bundle domain (PF02885; HMM-score: 78.9)
  Hybrid (CL0105) HlyD_D23; Barrel-sandwich domain of CusB or HlyD membrane-fusion (PF16576; HMM-score: 12.6)
  Glycine-zipper (CL0500) DUF1269; Protein of unknown function (DUF1269) (PF06897; HMM-score: 11.2)

⊟Structure, modifications & cofactors

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

⊟Localization

• PSORTb: unknown (no significant prediction)
  • Cytoplasmic Score: 2.5
  • Cytoplasmic Membrane Score: 2.5
  • Cellwall Score: 2.5
  • Extracellular Score: 2.5
  • Internal Helices: 0
• DeepLocPro: Cytoplasmic
  • Cytoplasmic Score: 0.9973
  • Cytoplasmic Membrane Score: 0.0004
  • Cell wall & surface Score: 0.0001
  • Extracellular Score: 0.0023
• LocateP:
• SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.003598
  • TAT(Tat/SPI): 0.000203
  • LIPO(Sec/SPII): 0.00034
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI:
• RefSeq:
• UniProt:

⊟Protein sequence

• MRMIDIIEKKRDGHTLTTEEINFFIDGYVKGDIPDYQASSLAMAIYFQDMNDDERAALTMAMVNSGDMIDLSDIKGVKVDKHSTGGVGDTTTLVLAPLVAAVDVPVAKMSGRGLGHTGGTIDKLEAIDGFHVEIDEATFVKLVNENKVAVVGQSGNLTPADKKLYALRDVTGTVNSIPLIASSIMSKKIAAGADAIVLDVKTGSGAFMKTLEDAEALAHAMVRIGNNVGRNTMAIISDMNQPLGRAIGNALELQEAIDTLKGQGPKDLTELVLTLGSQMVVLANKAETLEEARALLIEAIDSGAALEKFKTFIKNQGGDETVIDHPERLPQAQYQIEYKAKKSGYVTELVSNDIGVASMMLGAGRLTKEDDIDLAVGIVLNKKIGDKVEEGESLLTIHSNRQDVDDVVKKLDSSITIADHVVSPTLIHKIITE

⊟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: 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