SMTL ID : 5krt.1

HIV-1 Integrase Catalytic Core Domain (CCD) in Complex with a Fragment-Derived Allosteric Inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

4 x 6W6: 3-[2,5-bis(chloranyl)pyrrol-1-yl]thiophene-2-carboxylic acid(Non-covalent)

6W6.1: 6 residues within 4Å: Chain A: E.103, I.107, Q.110, V.111, I.128, K.132 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.107, A:I.128, A:I.128, A:K.132 Salt bridges: A:K.132 pi-Cation interactions: A:K.132 Halogen bonds: A:Q.110 6W6.2: 11 residues within 4Å: Chain A: Q.41, A.44, Y.45, L.48, T.71, A.74, A.75 Chain B: A.115, E.116, H.117, T.120 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:Q.41, A:T.71 Hydrogen bonds: B:E.116, B:H.117, B:T.120, B:T.120 Salt bridges: B:H.117 6W6.3: 6 residues within 4Å: Chain B: E.103, I.107, Q.110, V.111, I.128, K.132 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:I.107, B:I.128, B:I.128, B:K.132 Salt bridges: B:K.132 pi-Cation interactions: B:K.132 Halogen bonds: B:Q.110 6W6.4: 11 residues within 4Å: Chain A: A.115, E.116, H.117, T.120 Chain B: Q.41, A.44, Y.45, L.48, T.71, A.74, A.75 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:E.116, A:H.117, A:T.120, A:T.120 Salt bridges: A:H.117 Hydrophobic interactions: B:Q.41, B:T.71

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patel, D. et al., A New Class of Allosteric HIV-1 Integrase Inhibitors Identified by Crystallographic Fragment Screening of the Catalytic Core Domain. J.Biol.Chem. (2016)

Release Date

2016-09-28

Peptides

Integrase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Integrase

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