TB Genome Annotation Portal

Rv3307 (deoD)

• Current annotations:
  • TBCAP: (community-based annotations - see table at bottom of page)
  • TBDB: purine nucleoside phosphorylase
  • REFSEQ: purine nucleoside phosphorylase
  • PATRIC: Purine nucleoside phosphorylase (EC 2.4.2.1)
  • TUBERCULIST: Probable purine nucleoside phosphorylase DeoD (inosine phosphorylase) (PNP)
  • NCBI: Probable purine nucleoside phosphorylase DeoD (inosine phosphorylase) (PNP)
  • updated information (H37Rv4):
    • gene name: deoD
    • function:
    • reference:
• Type: Not Target
• Start: 3694054
• End: 3694860
• Operon:


• Trans-membrane region:
  
• Role: I.F.4 - Salvage of nucleosides and nucleotides
• GO terms:
  • GO:0016763 - transferase activity, transferring pentosyl groups (Uniprot)
  • GO:0016757 - transferase activity, transferring glycosyl groups (Uniprot)
  • GO:0016740 - transferase activity (Uniprot)
  • GO:0009116 - nucleoside metabolic process (Uniprot)
  • GO:0006161 - deoxyguanosine catabolic process (Uniprot)
  • GO:0006139 - nucleobase-containing compound metabolic process (Uniprot)
  • GO:0004731 - purine-nucleoside phosphorylase activity (Uniprot)
  • GO:0003824 - catalytic activity (Uniprot)
• Reaction(s) (based on iSM810 metabolic model):
  • PI[c] + DIN[c] <=> HYXN[c] + DR1P[c]
  • PI[c] + DA[c] <=> AD[c] + DR1P[c]
  • R1P[c] + HYXN[c] <=> PI[c] + INS[c]
  • R1P[c] + AD[c] <=> PI[c] + ADN[c]
  • R1P[c] + GN[c] <=> PI[c] + GSN[c]
  • R1P[c] + XAN[c] <=> PI[c] + XTSINE[c]
  • R1P[c] + NAC[c] -> PI[c] + NACD[c]
  • R1P[c] + NAM[c] -> PI[c] + NAMD[c]
• Gene Expression Profile (Transcriptional Responses to Drugs; Boshoff et al, 2004)
• Gene Modules extracted from cluster analysis of 249 transcriptomic datasets using ICA
• Orthologs among selected mycobacteria
• Protein structure: 1n3i, 1i80, 3iom, 3scz, 1g2o
• Search for Homologs in PDB
• Top 10 Homologs in PDB (as of Nov 2020):
  

  PDB	aa ident	species	PDB title
  3SCZ	99%	Mycobacterium tuberculosis	Combining crystallographic, thermodynamic, and molecular dynamics studies of Mycobacterium tuberculosis purine nucleoside phosphorylase
  3IOM	99%	Mycobacterium tuberculosis	Crystal structure of Purine Nucleoside Phosphorylase from Mycobacterium tuberculosis in complex with 2'-Deoxyguanosine
  1N3I	99%	Mycobacterium tuberculosis	Crystal Structure of Mycobacterium tuberculosis PNP with transition state analog DADMe-ImmH
  1I80	99%	Mycobacterium tuberculosis	CRYSTAL STRUCTURE OF M. TUBERCULOSIS PNP IN COMPLEX WITH IMINORIBITOL, 9-DEAZAHYPOXANTHINE AND PHOSPHATE ION
  1G2O	99%	Mycobacterium tuberculosis	CRYSTAL STRUCTURE OF PURINE NUCLEOSIDE PHOSPHORYLASE FROM MYCOBACTERIUM TUBERCULOSIS IN COMPLEX WITH A TRANSITION-STATE INHIBITOR
  1QE5	57%	Cellulomonas sp.	PURINE NUCLEOSIDE PHOSPHORYLASE FROM CELLULOMONAS SP. IN COMPLEX WITH PHOSPHATE
  1C3X	57%	Cellulomonas sp.	PURINE NUCLEOSIDE PHOSPHORYLASE FROM CELLULOMONAS SP. IN COMPLEX WITH 8-IODO-GUANINE
  3LBA	44%	Streptococcus mutans	The Crystal Structure of smu.1229 from Streptococcus mutans UA159 bound to hypoxanthine
  3LA8	44%	Streptococcus mutans	The Crystal Structure of smu.1229 from Streptococcus mutans UA159
  1VMK	42%	Thermotoga maritima	Crystal structure of Purine nucleoside phosphorylase (TM1596) from Thermotoga maritima at 2.01 A resolution

• Links to additional information on deoD:
  • TBDB (updated)
  • Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
  • UniProt
  • AlphaFold model
  • Vulnerability = 0.174 (from Jeremy Rock's lab)
  • KEGG - nucleotide and amino acid sequences of gene
  • Mycobrowser
  • PATRIC
  • BioCyc
  • Systems Biology

Amino Acid Sequence

VADPRPDPDELARRAAQVIADRTGIGEHDVAVVLGSGWLPAVAALGSPTTVLPQAELPGFVPPTAAGHAGELLSVPIGAHRVLVLAGRIHAYEGHDLRYV
VHPVRAARAAGAQIMVLTNAAGGLRADLQVGQPVLISDHLNLTARSPLVGGEFVDLTDAYSPRLRELARQSDPQLAEGVYAGLPGPHYETPAEIRMLQTL
GADLVGMSTVHETIAARAAGAEVLGVSLVTNLAAGITGEPLSHAEVLAAGAASATRMGALLADVIARF

Additional Information