Transition states of native and drug-resistant HIV-1 protease are the same

D. Randal Kipp, Jennifer S. Hirschi, Aya Wakata, Harris Goldstein, Vern L. Schramm

Research output: Contribution to journalArticle

15 Citations (Scopus)

Abstract

HIV-1 protease is an important target for the treatment of HIV/AIDS. However, drug resistance is a persistent problem and new inhibitors are needed. An approach toward understanding enzyme chemistry, the basis of drug resistance, and the design of powerful inhibitors is to establish the structure of enzymatic transition states. Enzymatic transition structures can be established by matching experimental kinetic isotope effects (KIEs) with theoretical predictions. However, the HIV-1 protease transition state has not been previously resolved using these methods. We have measured primary 14C and 15N KIEs and secondary 3H and 18O KIEs for native and multidrug-resistant HIV-1 protease (I84V). We observed 14C KIEs ( 14V/K) of 1.029 ± 0.003 and 1.025 ± 0.005, 15N KIEs ( 15V/K) of 0.987 ± 0.004 and 0.989 ± 0.003, 18O KIEs ( 18V/K) of 0.999 ± 0.003 and 0.993 ± 0.003, and 3H KIEs ( 3V/K) KIEs of 0.968 ± 0.001 and 0.976 ± 0.001 for the native and I84V enzyme, respectively. The chemical reaction involves nucleophilic water attack at the carbonyl carbon, proton transfer to the amide nitrogen leaving group, and C-N bond cleavage. A transition structure consistent with the KIE values involves proton transfer from the active site Asp-125 (1.32 Å) with partial hydrogen bond formation to the accepting nitrogen (1.20 Å) and partial bond loss from the carbonyl carbon to the amide leaving group (1.52 Å). The KIEs measured for the native and I84V enzyme indicate nearly identical transition states, implying that a true transition-state analogue should be effective against both enzymes.

Original languageEnglish (US)
Pages (from-to)6543-6548
Number of pages6
JournalProceedings of the National Academy of Sciences of the United States of America
Volume109
Issue number17
DOIs
StatePublished - Apr 24 2012

Fingerprint

Isotopes
Pharmaceutical Preparations
Enzymes
Drug Resistance
Amides
Protons
Nitrogen
Carbon
Human immunodeficiency virus 1 p16 protease
Drug Design
Hydrogen
Catalytic Domain
Acquired Immunodeficiency Syndrome
HIV
Water

Keywords

  • Aspartyl protease
  • Drug design
  • Protease mechanism
  • Transition-state structure

ASJC Scopus subject areas

  • General

Cite this

Transition states of native and drug-resistant HIV-1 protease are the same. / Kipp, D. Randal; Hirschi, Jennifer S.; Wakata, Aya; Goldstein, Harris; Schramm, Vern L.

In: Proceedings of the National Academy of Sciences of the United States of America, Vol. 109, No. 17, 24.04.2012, p. 6543-6548.

Research output: Contribution to journalArticle

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abstract = "HIV-1 protease is an important target for the treatment of HIV/AIDS. However, drug resistance is a persistent problem and new inhibitors are needed. An approach toward understanding enzyme chemistry, the basis of drug resistance, and the design of powerful inhibitors is to establish the structure of enzymatic transition states. Enzymatic transition structures can be established by matching experimental kinetic isotope effects (KIEs) with theoretical predictions. However, the HIV-1 protease transition state has not been previously resolved using these methods. We have measured primary 14C and 15N KIEs and secondary 3H and 18O KIEs for native and multidrug-resistant HIV-1 protease (I84V). We observed 14C KIEs ( 14V/K) of 1.029 ± 0.003 and 1.025 ± 0.005, 15N KIEs ( 15V/K) of 0.987 ± 0.004 and 0.989 ± 0.003, 18O KIEs ( 18V/K) of 0.999 ± 0.003 and 0.993 ± 0.003, and 3H KIEs ( 3V/K) KIEs of 0.968 ± 0.001 and 0.976 ± 0.001 for the native and I84V enzyme, respectively. The chemical reaction involves nucleophilic water attack at the carbonyl carbon, proton transfer to the amide nitrogen leaving group, and C-N bond cleavage. A transition structure consistent with the KIE values involves proton transfer from the active site Asp-125 (1.32 {\AA}) with partial hydrogen bond formation to the accepting nitrogen (1.20 {\AA}) and partial bond loss from the carbonyl carbon to the amide leaving group (1.52 {\AA}). The KIEs measured for the native and I84V enzyme indicate nearly identical transition states, implying that a true transition-state analogue should be effective against both enzymes.",
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