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Author:

Hu Jianping (Hu Jianping.) | Zhang Xiaoyi (Zhang Xiaoyi.) | Tang Dianyong (Tang Dianyong.) | Chang Shan (Chang Shan.)

Indexed by:

Scopus SCIE PKU CSCD

Abstract:

The recognitions and interactions of a series of aryl diketoacid (ADK) inhibitors with HIV-1 integrase (IN) were studied via molecular docking method. The results indicate that the inhibitors bind to the pocket (formed by Asp64 similar to Leu68, Thr115 similar to Phe121, Gln148 similar to Lys159 and Mg2+ ion) of IN, and the inhibiting mechanism is similar to that of 5CITEP. Molecular dynamics simulation and MM/PBSA methods were used to calculate the binding free energy between ADK inhibitors and IN. The calculated binding free energy agrees well with experimental data, and the average absolute deviation is 3.6 kJ/mol. It was also found that the formation of the complex was mainly driven by the favorable van der Waals'(VDW) interactions in the system and the favorable non-polar item of the solvent effect. Correlation analysis shows that the binding free energy has obvious linear correlation with the hydrophobic interaction (R=0.61), from which a good model predicting the binding free energy of ADK inhibitors with HIV-1 IN has been obtained through a multiple linear regression method. All the above simulation results provide us with some helpful instruction for the anti-HIV drug design based on the structures of inhibitors.

Keyword:

binding free energy molecular design correlation integrase aryl diketoacid

Author Community:

  • [ 1 ] [Hu Jianping]Leshan Teachers Coll, Coll Chem & Life Sci, Leshan 614004, Peoples R China
  • [ 2 ] [Tang Dianyong]Leshan Teachers Coll, Coll Chem & Life Sci, Leshan 614004, Peoples R China
  • [ 3 ] [Zhang Xiaoyi]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 4 ] [Chang Shan]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China

Reprint Author's Address:

  • [Hu Jianping]Leshan Teachers Coll, Coll Chem & Life Sci, Leshan 614004, Peoples R China

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Source :

ACTA CHIMICA SINICA

ISSN: 0567-7351

Year: 2009

Issue: 19

Volume: 67

Page: 2177-2183

2 . 5 0 0

JCR@2022

ESI Discipline: CHEMISTRY;

JCR Journal Grade:3

CAS Journal Grade:1

Cited Count:

WoS CC Cited Count: 1

SCOPUS Cited Count:

ESI Highly Cited Papers on the List: 0 Unfold All

WanFang Cited Count:

Chinese Cited Count:

30 Days PV: 9

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