6UL5 image
Deposition Date 2019-10-06
Release Date 2020-02-05
Last Version Date 2023-10-11
Entry Detail
PDB ID:
6UL5
Keywords:
Title:
Crystal structure of HIV-1 reverse transcriptase (RT) in complex with 4-[(4-{4-[(E)-2-cyanoethenyl]-2,6-dimethylphenoxy}thieno[3,2-d]pyrimidin-2-yl)amino]-2-fluorobenzonitrile (24b), a non-nucleoside RT inhibitor
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.23 Å
R-Value Free:
0.24
R-Value Work:
0.21
R-Value Observed:
0.21
Space Group:
C 1 2 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Reverse transcriptase p66
Gene (Uniprot):gag-pol
Mutagens:K172A, K173A, C280S
Chain IDs:A
Chain Length:557
Number of Molecules:1
Biological Source:Human immunodeficiency virus type 1
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Reverse transcriptase p51
Gene (Uniprot):gag-pol
Mutagens:C280S
Chain IDs:B
Chain Length:429
Number of Molecules:1
Biological Source:Human immunodeficiency virus type 1
Primary Citation
Discovery and Characterization of Fluorine-Substituted Diarylpyrimidine Derivatives as Novel HIV-1 NNRTIs with Highly Improved Resistance Profiles and Low Activity for the hERG Ion Channel.
J.Med.Chem. 63 1298 1312 (2020)
PMID: 31935327 DOI: 10.1021/acs.jmedchem.9b01769

Abstact

Our previous efforts have led to the development of two potent NNRTIs, K-5a2 and 25a, exhibiting effective anti-HIV-1 potency and resistance profiles compared with etravirine. However, both inhibitors suffered from potent hERG inhibition and short half-life. In this article, with K-5a2 and etravirine as leads, series of novel fluorine-substituted diarylpyrimidine derivatives were designed via molecular hybridization and bioisosterism strategies. The results indicated 24b was the most active inhibitor, exhibiting broad-spectrum activity (EC50 = 3.60-21.5 nM) against resistant strains, significantly lower cytotoxicity (CC50= 155 μM), and reduced hERG inhibition (IC50 > 30 μM). Crystallographic studies confirmed the binding of 24b and the role of the fluorine atom, as well as optimal contacts of a nitrile group with the main-chain carbonyl group of H235. Furthermore, 24b showed longer half-life and favorable safety properties. All the results demonstrated that 24b has significant promise in circumventing drug resistance as an anti-HIV-1 candidate.

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