Conformational changes in orotidine 5′-monophosphate decarboxylase

"remote" residues that stabilize the active conformation

B. McKay Wood, Tina L. Amyes, Alexander A. Fedorov, Elena V. Fedorov, Andrew Shabila, Steven C. Almo, John P. Richard, John A. Gerlt

Research output: Contribution to journalArticle

15 Citations (Scopus)

Abstract

The structural factors responsible for the extraordinary rate enhancement (∼1017) of the reaction catalyzed by orotidine 5′-monophosphate decarboxylase (OMPDC) have not been defined. Catalysis requires a conformational change that closes an active site loop and "clamps" the orotate base proximal to hydrogen-bonded networks that destabilize the substrate and stabilize the intermediate. In the OMPDC from Methanobacter thermoautotrophicus, a "remote" structurally conserved cluster of hydrophobic residues that includes Val 182 in the active site loop is assembled in the closed, catalytically active conformation. Substitution of these residues with Ala decreases kcat/Km with a minimal effect on kcat, providing evidence that the cluster stabilizes the closed conformation. The intrinsic binding energies of the 5′-phosphate group of orotidine 5′-monophosphate for the mutant enzymes are similar to that for the wild type, supporting this conclusion.

Original languageEnglish (US)
Pages (from-to)3514-3516
Number of pages3
JournalBiochemistry
Volume49
Issue number17
DOIs
StatePublished - May 4 2010

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Carboxy-Lyases
Conformations
Catalytic Domain
Clamping devices
Binding energy
Catalysis
Hydrogen
Substitution reactions
Phosphates
Substrates
Enzymes
orotidylic acid

ASJC Scopus subject areas

  • Biochemistry

Cite this

Conformational changes in orotidine 5′-monophosphate decarboxylase : "remote" residues that stabilize the active conformation. / Wood, B. McKay; Amyes, Tina L.; Fedorov, Alexander A.; Fedorov, Elena V.; Shabila, Andrew; Almo, Steven C.; Richard, John P.; Gerlt, John A.

In: Biochemistry, Vol. 49, No. 17, 04.05.2010, p. 3514-3516.

Research output: Contribution to journalArticle

Wood, BM, Amyes, TL, Fedorov, AA, Fedorov, EV, Shabila, A, Almo, SC, Richard, JP & Gerlt, JA 2010, 'Conformational changes in orotidine 5′-monophosphate decarboxylase: "remote" residues that stabilize the active conformation', Biochemistry, vol. 49, no. 17, pp. 3514-3516. https://doi.org/10.1021/bi100443a
Wood, B. McKay ; Amyes, Tina L. ; Fedorov, Alexander A. ; Fedorov, Elena V. ; Shabila, Andrew ; Almo, Steven C. ; Richard, John P. ; Gerlt, John A. / Conformational changes in orotidine 5′-monophosphate decarboxylase : "remote" residues that stabilize the active conformation. In: Biochemistry. 2010 ; Vol. 49, No. 17. pp. 3514-3516.
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