Literature DB >> 17407325

Neighboring group participation in the transition state of human purine nucleoside phosphorylase.

Andrew S Murkin1, Matthew R Birck, Agnes Rinaldo-Matthis, Wuxian Shi, Erika A Taylor, Steven C Almo, Vern L Schramm.   

Abstract

The X-ray crystal structures of human purine nucleoside phosphorylase (PNP) with bound inosine or transition-state analogues show His257 within hydrogen bonding distance of the 5'-hydroxyl. The mutants His257Phe, His257Gly, and His257Asp exhibited greatly decreased affinity for Immucillin-H (ImmH), binding this mimic of an early transition state as much as 370-fold (Km/Ki) less tightly than native PNP. In contrast, these mutants bound DADMe-ImmH, a mimic of a late transition state, nearly as well as the native enzyme. These results indicate that His257 serves an important role in the early stages of transition-state formation. Whereas mutation of His257 resulted in little variation in the PNP x DADMe-ImmH x SO4 structures, His257Phe x ImmH x PO4 showed distortion at the 5'-hydroxyl, indicating the importance of H-bonding in positioning this group during progression to the transition state. Binding isotope effect (BIE) and kinetic isotope effect (KIE) studies of the remote 5'-(3)H for the arsenolysis of inosine with native PNP revealed a BIE of 1.5% and an unexpectedly large intrinsic KIE of 4.6%. This result is interpreted as a moderate electronic distortion toward the transition state in the Michaelis complex with continued development of a similar distortion at the transition state. The mutants His257Phe, His257Gly, and His257Asp altered the 5'-(3)H intrinsic KIE to -3, -14, and 7%, respectively, while the BIEs contributed 2, 2, and -2%, respectively. These surprising results establish that forces in the Michaelis complex, reported by the BIEs, can be reversed or enhanced at the transition state.

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Year:  2007        PMID: 17407325      PMCID: PMC2526054          DOI: 10.1021/bi700147b

Source DB:  PubMed          Journal:  Biochemistry        ISSN: 0006-2960            Impact factor:   3.162


  36 in total

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2.  Comparison of initial velocity and binding data for allosteric adenosine monophosphate nucleosidase.

Authors:  V L Schramm
Journal:  J Biol Chem       Date:  1976-06-10       Impact factor: 5.157

3.  Diffraction methods for biological macromolecules. Interactive computer graphics: FRODO.

Authors:  T A Jones
Journal:  Methods Enzymol       Date:  1985       Impact factor: 1.600

4.  Purine nucleoside phosphorylase from human erythrocytes. I. Purification and properties.

Authors:  B K Kim; S Cha; R E Parks
Journal:  J Biol Chem       Date:  1968-04-25       Impact factor: 5.157

Review 5.  The behavior and significance of slow-binding enzyme inhibitors.

Authors:  J F Morrison; C T Walsh
Journal:  Adv Enzymol Relat Areas Mol Biol       Date:  1988

Review 6.  Structural analyses reveal two distinct families of nucleoside phosphorylases.

Authors:  Matthew J Pugmire; Steven E Ealick
Journal:  Biochem J       Date:  2002-01-01       Impact factor: 3.857

Review 7.  The expression of isotope effects on enzyme-catalyzed reactions.

Authors:  D B Northrop
Journal:  Annu Rev Biochem       Date:  1981       Impact factor: 23.643

8.  Transition state structure of purine nucleoside phosphorylase and principles of atomic motion in enzymatic catalysis.

Authors:  A Fedorov; W Shi; G Kicska; E Fedorov; P C Tyler; R H Furneaux; J C Hanson; G J Gainsford; J Z Larese; V L Schramm; S C Almo
Journal:  Biochemistry       Date:  2001-01-30       Impact factor: 3.162

9.  Purine nucleoside phosphorylase from human erythrocytes: physiocochemical properties of the crystalline enzyme.

Authors:  J D Stoeckler; R P Agarwal; K C Agarwal; K Schmid; R E Parks
Journal:  Biochemistry       Date:  1978-01-24       Impact factor: 3.162

Review 10.  Enzymatic transition state poise and transition state analogues.

Authors:  Vern L Schramm
Journal:  Acc Chem Res       Date:  2003-08       Impact factor: 22.384

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  26 in total

1.  Pyrophosphate interactions at the transition states of Plasmodium falciparum and human orotate phosphoribosyltransferases.

Authors:  Yong Zhang; Vern L Schramm
Journal:  J Am Chem Soc       Date:  2010-06-30       Impact factor: 15.419

2.  Pyrophosphate activation in hypoxanthine--guanine phosphoribosyltransferase with transition state analogue.

Authors:  Hua Deng; Robert Callender; Vern L Schramm; Charles Grubmeyer
Journal:  Biochemistry       Date:  2010-03-30       Impact factor: 3.162

3.  Atomic detail of chemical transformation at the transition state of an enzymatic reaction.

Authors:  Suwipa Saen-Oon; Sara Quaytman-Machleder; Vern L Schramm; Steven D Schwartz
Journal:  Proc Natl Acad Sci U S A       Date:  2008-10-22       Impact factor: 11.205

4.  Imino-oxy acetic acid dealkylation as evidence for an inner-sphere alcohol intermediate in the reaction catalyzed by peptidylglycine alpha-hydroxylating monooxygenase.

Authors:  Neil R McIntyre; Edward W Lowe; David J Merkler
Journal:  J Am Chem Soc       Date:  2009-07-29       Impact factor: 15.419

5.  A beta-fluoroamine inhibitor of purine nucleoside phosphorylase.

Authors:  Jennifer M Mason; Andrew S Murkin; Lei Li; Vern L Schramm; Graeme J Gainsford; Brian W Skelton
Journal:  J Med Chem       Date:  2008-09-25       Impact factor: 7.446

Review 6.  Binding isotope effects: boon and bane.

Authors:  Vern L Schramm
Journal:  Curr Opin Chem Biol       Date:  2007-09-14       Impact factor: 8.822

7.  A synchrotron radiation study of the one-dimensional complex of sodium with (1S)-N-carboxylato-1-(9-deazaadenin-9-yl)-1,4-dideoxy-1,4-imino-D-ribitol, a member of the 'immucillin' family.

Authors:  Graeme J Gainsford; Richard H Furneaux; Peter C Tyler; Anthony Sauve; Vern L Shramm
Journal:  Acta Crystallogr C       Date:  2010-02-03       Impact factor: 1.172

8.  Third-generation immucillins: syntheses and bioactivities of acyclic immucillin inhibitors of human purine nucleoside phosphorylase.

Authors:  Keith Clinch; Gary B Evans; Richard F G Fröhlich; Richard H Furneaux; Peter M Kelly; Laurent Legentil; Andrew S Murkin; Lei Li; Vern L Schramm; Peter C Tyler; Anthony D Woolhouse
Journal:  J Med Chem       Date:  2009-02-26       Impact factor: 7.446

9.  Ribocation transition state capture and rebound in human purine nucleoside phosphorylase.

Authors:  Mahmoud Ghanem; Andrew S Murkin; Vern L Schramm
Journal:  Chem Biol       Date:  2009-09-25

10.  L-Enantiomers of transition state analogue inhibitors bound to human purine nucleoside phosphorylase.

Authors:  Agnes Rinaldo-Matthis; Andrew S Murkin; Udupi A Ramagopal; Keith Clinch; Simon P H Mee; Gary B Evans; Peter C Tyler; Richard H Furneaux; Steven C Almo; Vern L Schramm
Journal:  J Am Chem Soc       Date:  2007-12-23       Impact factor: 15.419

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