SMTL ID : 6vlm.1

Core Catalytic Domain of HIV Integrase in complex with virtual screening hit

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.32 Å

Oligo State

homo-dimer

Ligands

3 x R2D: [3-(4-chlorophenyl)[1,3]thiazolo[3,2-a]benzimidazol-2-yl]acetic acid(Non-covalent)

R2D.1: 12 residues within 4Å: Chain A: Q.133, A.134, E.135, H.136, T.139 Chain B: L.67, T.89, T.90, A.93, A.94, W.97 Ligands: R2D.3 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:E.135, A:H.136 Salt bridges: A:H.136 Hydrophobic interactions: B:T.89, B:T.90, B:A.93 R2D.2: 11 residues within 4Å: Chain A: Q.60, T.89, T.90, A.93, A.94, W.97 Chain B: Q.133, A.134, E.135, H.136, T.139 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:A.93, B:T.139 Hydrogen bonds: B:E.135, B:H.136, B:T.139, B:T.139 Salt bridges: B:H.136 R2D.3: 7 residues within 4Å: Chain A: Q.133 Chain B: T.89, K.92, A.93, W.96, W.97 Ligands: R2D.1 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:W.96, B:W.96 pi-Stacking: B:W.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, X.C. et al., Augmenting Hit Identification by Virtual Screening Techniques in Small Molecule Drug Discovery. J.Chem.Inf.Model. (2020)

Release Date

2020-05-13

Peptides

Integrase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Integrase