Docking dinucleotides to HIV-1 integrase carboxyl-terminal domain to find possible DNA binding sites.
HIV-1 integrase mediates a processed viral DNA into the host genome DNA. The binding modes between HIV-1 integrase and viral/host DNA have not been clarified until now. The C-terminal domain of integrase has been found to be a DNA-binding domain. In this work, we have explored the possible DNA binding sites of dimeric C-terminal domain by docking dinucleotides to HIV-1 integrase. The docking results suggest that two symmetrical DNA-binding sites are likely located on the outside surface of the dimeric C-terminal domain and not located in the groove. Those sites are in agreement with the experimental data.
Zhu
Hai Mei
HM
College of Life Science and Bioengineering, Beijing University of Technology, Beijing 100022, China.
Chen
Wei Zu
WZ
Wang
Cun Xin
CX
D001665:Binding Sites; D002264:Carboxylic Acids / Q000737:chemistry*; D018360:Crystallography, X-Ray; D004279:DNA, Viral / Q000737:chemistry*; D019281:Dimerization; D019427:HIV Integrase / Q000737:chemistry / Q000378:metabolism*; D019428:HIV Integrase Inhibitors; D015497:HIV-1 / Q000201:enzymology*; D008958:Models, Molecular; D009711:Nucleotides / Q000737:chemistry / Q000378:metabolism*; D017434:Protein Structure, Tertiary
D002264:Carboxylic Acids; D004279:DNA, Viral; D019428:HIV Integrase Inhibitors; D009711:Nucleotides; D019427:HIV Integrase