6LMI image
Entry Detail
PDB ID:
6LMI
Keywords:
TRANSFERASE
Title:
Crystal structure of HIV-1 integrase catalytic core domain in complex with 2-(tert-butoxy)-2-[3-(3,4-dihydro-2H-1-benzopyran-6-yl)-6-methanesulfonamido-2,3',4',5-tetramethyl-[1,1'-biphenyl]-4-yl]acetic acid
Biological Source:
Source Organism:
Human immunodeficiency virus type 1 group M subtype B (isolate NY5)
Host Organism:
Escherichia coli
PDB Version:
Deposition Date:
2019-12-25
Release Date:
2020-09-23
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.50 Å
R-Value Free:
0.24
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 31 2 1
6LMI validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Description:Integrase catalytic
Mutations:F185K
Chain IDs:A
Chain Length:166
Number of Molecules:1
Biological Source:Human immunodeficiency virus type 1 group M subtype B (isolate NY5)
UniProt ID:P12497 Pfam ID:PF00665
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
CAF A CYS modified residue
Ligand Molecules
EDO
EJ9
PGE
SO4
Primary Citation
Discovery of novel integrase-LEDGF/p75 allosteric inhibitors based on a benzene scaffold.
Bioorg.Med.Chem. 28 115643 115643 (2020)
PMID: 32773094 DOI: 10.1016/j.bmc.2020.115643

Abstact

We report herein the discovery of novel integrase-LEDGF/p75 allosteric inhibitors (INLAIs) based on a benzene scaffold 3. This scaffold can extend substituents from the C1 position unlike the common pyridine scaffolds 2. Structure-activity relationship studies showed that the sulfonamide linker at the C1 position was important for the antiviral activity. Interaction between sulfonamide and Q95 was observed by X-ray crystallography. Compound 31h showed more potent antiviral activity (EC50 (NL432) = 3.9 nM) than BI-224436 (EC50 (NL432) = 56 nM), suggesting the potential of the newly designed scaffold 3.

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Disease

Primary Citation of related structures
6LMI