Calf spleen purine nucleoside phosphorylase complexed with substrates and substrate analogues

Chen Mao, William J. Cook, Min Zhou, Alexander A. Federov, Steven C. Almo, Steven E. Ealick

Research output: Contribution to journalArticle

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Abstract

Purine nucleoside phosphorylase (PNP) is a key enzyme in the purine salvage pathway, which provides an alternative to the de novo pathway for the biosynthesis of purine nucleotides. PNP catalyzes the reversible phosphorolysis of 2'-deoxypurine ribonucleosides to the free bases and 2- deoxyribose 1-phosphate. Absence of PNP activity in humans is associated with specific T-cell immune suppression. Its key role in these two processes has made PNP an important drug design target. We have investigated the structural details of the PNP-catalyzed reaction by determining the structures of bovine PNP complexes with various substrates and substrate analogues. The preparation of phosphate-free crystals of PNP has allowed us to analyze several novel complexes, including the ternary complex of PNP, purine base, and ribose 1-phosphate and of the completely unbound PNP. These results provide an atomic view for the catalytic mechanism for PNP proposed by M.D. Erion et al. [(1997) Biochemistry 36, 11735-11748], in which an oxocarbenium intermediate is stabilized by phosphate and the negative charge on the purine base is stabilized by active site residues. The bovine PNP structure reveals several new details of substrate and inhibitor binding, including two phosphate-induced conformational changes involving residues 3336 and 56-69 and a previously undetected role for His64 in phosphate binding. In addition, a well-ordered water molecule is found in the PNP active site when purine base or nucleoside is also present. In contrast to human PNP, only one phosphate binding site was observed. Although binary complexes were observed for nucleoside, purine base, or phosphate, ribose 1-phosphate binding occurs only in the presence of purine base.

Original languageEnglish (US)
Pages (from-to)7135-7146
Number of pages12
JournalBiochemistry
Volume37
Issue number20
DOIs
StatePublished - May 19 1998

Fingerprint

Purine-Nucleoside Phosphorylase
Spleen
Substrates
Phosphates
Catalytic Domain
Purine Nucleosides
Ribonucleosides
Purine Nucleotides
Salvaging
Biochemistry
T-cells
Drug Design
Biosynthesis
Nucleosides
Human Activities

ASJC Scopus subject areas

  • Biochemistry

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Calf spleen purine nucleoside phosphorylase complexed with substrates and substrate analogues. / Mao, Chen; Cook, William J.; Zhou, Min; Federov, Alexander A.; Almo, Steven C.; Ealick, Steven E.

In: Biochemistry, Vol. 37, No. 20, 19.05.1998, p. 7135-7146.

Research output: Contribution to journalArticle

Mao, Chen ; Cook, William J. ; Zhou, Min ; Federov, Alexander A. ; Almo, Steven C. ; Ealick, Steven E. / Calf spleen purine nucleoside phosphorylase complexed with substrates and substrate analogues. In: Biochemistry. 1998 ; Vol. 37, No. 20. pp. 7135-7146.
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abstract = "Purine nucleoside phosphorylase (PNP) is a key enzyme in the purine salvage pathway, which provides an alternative to the de novo pathway for the biosynthesis of purine nucleotides. PNP catalyzes the reversible phosphorolysis of 2'-deoxypurine ribonucleosides to the free bases and 2- deoxyribose 1-phosphate. Absence of PNP activity in humans is associated with specific T-cell immune suppression. Its key role in these two processes has made PNP an important drug design target. We have investigated the structural details of the PNP-catalyzed reaction by determining the structures of bovine PNP complexes with various substrates and substrate analogues. The preparation of phosphate-free crystals of PNP has allowed us to analyze several novel complexes, including the ternary complex of PNP, purine base, and ribose 1-phosphate and of the completely unbound PNP. These results provide an atomic view for the catalytic mechanism for PNP proposed by M.D. Erion et al. [(1997) Biochemistry 36, 11735-11748], in which an oxocarbenium intermediate is stabilized by phosphate and the negative charge on the purine base is stabilized by active site residues. The bovine PNP structure reveals several new details of substrate and inhibitor binding, including two phosphate-induced conformational changes involving residues 3336 and 56-69 and a previously undetected role for His64 in phosphate binding. In addition, a well-ordered water molecule is found in the PNP active site when purine base or nucleoside is also present. In contrast to human PNP, only one phosphate binding site was observed. Although binary complexes were observed for nucleoside, purine base, or phosphate, ribose 1-phosphate binding occurs only in the presence of purine base.",
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