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

NCBI: 10-JUN-2013

⊟Summary

• organism: Staphylococcus aureus USA300_FPR3757
• locus tag: SAUSA300_0141 [new locus tag: SAUSA300_RS00740 ]
• pan locus tag^?: SAUPAN000951000
• symbol: deoB
• pan gene symbol^?: deoB
• synonym:
• product: phosphopentomutase

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SAUSA300_0141 [new locus tag: SAUSA300_RS00740 ]
• symbol: deoB
• product: phosphopentomutase
• replicon: chromosome
• strand: +
• coordinates: 159914..161092
• length: 1179
• essential: unknown other strains

⊟Accession numbers

• Gene ID: 3914325 NCBI
• RefSeq: YP_492858 NCBI
• BioCyc: see SAUSA300_RS00740
• MicrobesOnline: 1291656 MicrobesOnline

⊟Phenotype

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⊟DNA sequence

• 1
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  ATGACAAGACCATTTAATCGTGTACATTTAATCGTAATGGATTCAGTAGGTATTGGTGAA
  GCGCCAGACGCAGCTGATTTTAAAGATGAAGGTTCACATACTTTAAGACATACCTTAGAA
  GGTTTCGATCAAACTTTACCAAACCTTGAAAAGTTAGGTCTAGGGAACATCGATAAATTA
  CCAGTAGTAAATGCAGTTGAACAACCAGAAGCATACTATACTAAATTGAGTGAAGCTTCA
  GTTGGTAAAGATACAATGACTGGTCACTGGGAAATTATGGGATTAAATATTATGCAACCT
  TTTAAAGTATACCCTAATGGATTCCCTGAAGAGTTAATTCAACAAATTGAAGAAATGACA
  GGTCGTAAAGTTGTTGCTAACAAACCGGCATCGGGTACGCAAATTATCGATGAGTGGGGC
  GAGCACCAAATGAAAACTGGTGACTTAATTGTTTATACAAGTGCAGACCCAGTATTGCAA
  ATTGCTGCACATGAAGACATTATCCCATTAGAAGAGTTATATGATATTTGTGAAAAGGTT
  CGTGAGTTGACAAAAGACCCTAAATATTTAATTGGTCGTATTATCGCACGTCCATATGTT
  GGTGAACCAGGAAACTTTACACGTACATCTAATCGACATGACTATGCGTTAAAACCTTTT
  GGTAAAACTGTCTTAGATCATTTGAAAGACGGTGGTTATGATGTTATTGCCATCGGTAAA
  ATTAATGACATTTATGATGGTGAAGGTGTAACAGAAGCGGTTCGTACGAAGAGTAACATG
  GACGGTATGGATCAATTGATGAAAATTGTTAAGAAAGATTTCACAGGTATTAGCTTCTTA
  AACTTAGTAGACTTTGATGCATTATACGGTCATCGTCGTGATAAACCAGGTTATGCACAA
  GCAATTAAAGATTTCGATGATCGCTTGCCAGAACTGTTTAGCAACTTAAAAGAAGACGAT
  TTAGTAATTATTACAGCAGACCATGGTAATGACCCGACAGCGCCAGGTACGGACCATACG
  AGAGAATATATCCCAGTAATTATGTACAGTCCGAAATTTAAAGGTGGTCATGCACTAGAA
  AGTGATACTACATTCAGTTCTATCGGTGCAACTATAGCAGATAATTTCAACGTAACATTA
  CCAGAGTTCGGTAAAAGTTATTTAAAGGAATTGAAATAG
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⊟Protein

⊟General

• locus tag: SAUSA300_0141 [new locus tag: SAUSA300_RS00740 ]
• symbol: DeoB
• description: phosphopentomutase
• length: 392
• theoretical pI: 4.76649
• theoretical MW: 43795.3
• GRAVY: -0.406122

⊟Function

• reaction:
  EC 5.4.2.7?  ExPASy
  Phosphopentomutase Alpha-D-ribose 1-phosphate = D-ribose 5-phosphate 2-deoxy-alpha-D-ribose 1-phosphate = 2-deoxy-alpha-D-ribose 5-phosphate?
• TIGRFAM:
  Metabolism Purines, pyrimidines, nucleosides, and nucleotides Other phosphopentomutase (TIGR01696; EC 5.4.2.7; HMM-score: 743.7)
  and 2 more
  Metabolism Energy metabolism Glycolysis/gluconeogenesis phosphoglycerate mutase (2,3-diphosphoglycerate-independent) (TIGR01307; EC 5.4.2.12; HMM-score: 22.3)
  Metabolism Energy metabolism Glycolysis/gluconeogenesis phosphoglycerate mutase (2,3-diphosphoglycerate-independent), archaeal form (TIGR00306; EC 5.4.2.12; HMM-score: 21.9)
• TheSEED  :
  • Phosphopentomutase (EC 5.4.2.7)
  Carbohydrates Monosaccharides Deoxyribose and Deoxynucleoside Catabolism  Phosphopentomutase (EC 5.4.2.7)
• PFAM:
  Alk_phosphatase (CL0088) Metalloenzyme; Metalloenzyme superfamily (PF01676; HMM-score: 133.8)
  and 3 more
  Phosphodiest; Type I phosphodiesterase / nucleotide pyrophosphatase (PF01663; HMM-score: 19.6)
  no clan defined GFRP; GTP cyclohydrolase I feedback regulatory protein (GFRP) (PF06399; HMM-score: 12.9)
  Alk_phosphatase (CL0088) Sulfatase; Sulfatase (PF00884; HMM-score: 12.3)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors: Mn²⁺
• 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): 0.01247
  • TAT(Tat/SPI): 0.001408
  • LIPO(Sec/SPII): 0.001664
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI: 87162049 NCBI
• RefSeq: YP_492858 NCBI
• UniProt: Q2FKC0 UniProt

⊟Protein sequence

• MTRPFNRVHLIVMDSVGIGEAPDAADFKDEGSHTLRHTLEGFDQTLPNLEKLGLGNIDKLPVVNAVEQPEAYYTKLSEASVGKDTMTGHWEIMGLNIMQPFKVYPNGFPEELIQQIEEMTGRKVVANKPASGTQIIDEWGEHQMKTGDLIVYTSADPVLQIAAHEDIIPLEELYDICEKVRELTKDPKYLIGRIIARPYVGEPGNFTRTSNRHDYALKPFGKTVLDHLKDGGYDVIAIGKINDIYDGEGVTEAVRTKSNMDGMDQLMKIVKKDFTGISFLNLVDFDALYGHRRDKPGYAQAIKDFDDRLPELFSNLKEDDLVIITADHGNDPTAPGTDHTREYIPVIMYSPKFKGGHALESDTTFSSIGATIADNFNVTLPEFGKSYLKELK

⊟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: deoC > deoB

⊟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