Enzyme homologues have distinct reaction paths through their transition states

Ioanna Zoi, Matthew W. Motley, Dimitri Antoniou, Vern L. Schramm, Steven D. Schwartz

Research output: Contribution to journalArticle

6 Citations (Scopus)

Abstract

Recent studies of the bacterial enzymes EcMTAN and VcMTAN showed that they have different binding affinities for the same transition state analogue. This was surprising given the similarity of their active sites. We performed transition path sampling simulations of both enzymes to reveal the atomic details of the catalytic chemical step, which may be the key for explaining the inhibitor affinity differences. Even though all experimental data would suggest the two enzymes are almost identical, subtle dynamic differences manifest in differences of reaction coordinate, transition state structure, and eventually significant differences in inhibitor binding. Unlike EcMTAN, VcMTAN has multiple distinct transition states, which is an indication that multiple sets of coordinated protein motions can reach a transition state. Reaction coordinate information is only accessible from transition path sampling approaches, since all experimental approaches report averages. Detailed knowledge could have a significant impact on pharmaceutical design.

Original languageEnglish (US)
Pages (from-to)3662-3668
Number of pages7
JournalJournal of Physical Chemistry B
Volume119
Issue number9
DOIs
StatePublished - Mar 5 2015

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enzymes
Enzymes
Sampling
Drug products
inhibitors
affinity
sampling
Proteins
Pharmaceutical Preparations
indication
analogs
proteins
simulation

ASJC Scopus subject areas

  • Physical and Theoretical Chemistry
  • Materials Chemistry
  • Surfaces, Coatings and Films

Cite this

Enzyme homologues have distinct reaction paths through their transition states. / Zoi, Ioanna; Motley, Matthew W.; Antoniou, Dimitri; Schramm, Vern L.; Schwartz, Steven D.

In: Journal of Physical Chemistry B, Vol. 119, No. 9, 05.03.2015, p. 3662-3668.

Research output: Contribution to journalArticle

Zoi, Ioanna ; Motley, Matthew W. ; Antoniou, Dimitri ; Schramm, Vern L. ; Schwartz, Steven D. / Enzyme homologues have distinct reaction paths through their transition states. In: Journal of Physical Chemistry B. 2015 ; Vol. 119, No. 9. pp. 3662-3668.
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