TB Genome Annotation Portal

Rv0772 (purD)

• Current annotations:
  • TBCAP: (community-based annotations - see table at bottom of page)
  • TBDB: phosphoribosylamine-glycine ligase
  • REFSEQ: phosphoribosylamine--glycine ligase
  • PATRIC: Phosphoribosylamine--glycine ligase (EC 6.3.4.13)
  • TUBERCULIST: Probable phosphoribosylamine--glycine ligase PurD (GARS) (glycinamide ribonucleotide synthetase) (phosphoribosylglycinamide synthetase) (5'-phosphoribosylglycinamide synthetase)
  • NCBI: Probable phosphoribosylamine--glycine ligase PurD (GARS) (glycinamide ribonucleotide synthetase) (phosphoribosylglycinamide synthetase) (5'-phosphoribosylglycinamide synthetase)
  • updated information (H37Rv4):
    • gene name: purD
    • function:
    • reference:
• Type: Not Target
• Start: 864586
• End: 865854
• Operon:


• Trans-membrane region:
  
• Role: I.F.1 - Purine ribonucleotide biosynthesis
• GO terms:
  • GO:0046872 - metal ion binding (Uniprot)
  • GO:0040007 - growth (Uniprot)
  • GO:0016874 - ligase activity (Uniprot)
  • GO:0009113 - purine nucleobase biosynthetic process (Uniprot)
  • GO:0006189 - 'de novo' IMP biosynthetic process (Uniprot)
  • GO:0006164 - purine nucleotide biosynthetic process (Uniprot)
  • GO:0005524 - ATP binding (Uniprot)
  • GO:0004637 - phosphoribosylamine-glycine ligase activity (Uniprot)
  • GO:0000166 - nucleotide binding (Uniprot)
• Reaction(s) (based on iSM810 metabolic model):
  • ATP[c] + GLY[c] + PRAM[c] -> ADP[c] + PI[c] + GAR[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:
• Search for Homologs in PDB
• Top 10 Homologs in PDB (as of Nov 2020):
  

  PDB	aa ident	species	PDB title
  2IP4	45%	Thermus thermophilus	Crystal Structure of Glycinamide Ribonucleotide Synthetase from Thermus thermophilus HB8
  2YS7	42%	Geobacillus kaustophilus	Crystal structure of GAR synthetase from Geobacillus kaustophilus
  2YS6	42%	Geobacillus kaustophilus	Crystal structure of GAR synthetase from Geobacillus kaustophilus
  2YRX	42%	Geobacillus kaustophilus	Crystal structure of GAR synthetase from Geobacillus kaustophilus
  2YRW	42%	Geobacillus kaustophilus	Crystal structure of GAR synthetase from Geobacillus kaustophilus
  1GSO	41%	Escherichia coli	GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE (GAR-SYN) FROM E. COLI.
  2XD4	41%	BACILLUS SUBTILIS	Nucleotide-bound Structures of Bacillus subtilis Glycinamide Ribonucleotide Synthetase
  2XCL	41%	BACILLUS SUBTILIS	Nucleotide-bound Structures of Bacillus subtilis Glycinamide Ribonucleotide Synthetase
  5VEV	41%	Neisseria gonorrhoeae (strain NCCP11945)	Crystal Structure of Phosphoribosylamine-glycine Ligase from Neisseria gonorrhoeae
  3MJF	41%	Yersinia pestis	Phosphoribosylamine-glycine ligase from Yersinia pestis

• Links to additional information on purD:
  • TBDB (updated)
  • Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
  • UniProt
  • AlphaFold model
  • Vulnerability = -7.525 (from Jeremy Rock's lab)
  • KEGG - nucleotide and amino acid sequences of gene
  • Mycobrowser
  • PATRIC
  • BioCyc
  • Systems Biology

Amino Acid Sequence

VRVLVIGSGAREHALLLALGKDPQVSGLIVAPGNAGTARIAEQHDVDITSAEAVVALAREVGADMVVIGPEVPLVLGVADAVRAAGIVCFGPGKDAARIE
GSKAFAKDVMAAAGVRTANSEIVDSPAHLDAALDRFGPPAGDPAWVVKDDRLAAGKGVVVTADRDVARAHGAALLEAGHPVLLESYLDGPEVSLFCVVDR
TVVVPLLPAQDFKRVGEDDTGLNTGGMGAYAPLPWLPDNIYREVVSRIVEPVAAELVRRGSSFCGLLYVGLAITARGPAVVEFNCRFGDPETQAVLALLE
SPLGQLLHAAATGKLADFGELRWRDGVAVTVVLAAENYPGRPRVGDVVVGSEAEGVLHAGTTRRDDGAIVSSGGRVLSVVGTGADLSAARAHAYEILSSI
RLPGGHFRSDIGLRAAEGKISV

Additional Information