SMTL ID : 8ct7.1

Catalytic Core Domain of HIV-1 Integrase (F185K) bound with BI-224436

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.13 Å

Oligo State

homo-dimer

Ligands

2 x L3D: (2S)-tert-butoxy[4-(2,3-dihydropyrano[4,3,2-de]quinolin-7-yl)-2-methylquinolin-3-yl]acetic acid(Non-covalent)

L3D.1: 13 residues within 4Å: Chain A: Q.119, A.120, E.121, H.122, T.125, M.129 Chain B: Q.46, L.53, T.75, T.76, A.79, A.80, W.83 10 PLIP interactions: 5 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:Q.46, B:T.75, B:A.79, B:A.80, B:W.83, A:T.125 Hydrogen bonds: A:E.121, A:H.122, A:T.125 Salt bridges: A:H.122 L3D.4: 13 residues within 4Å: Chain A: Q.46, L.53, T.75, T.76, A.79, A.80, W.83 Chain B: Q.119, A.120, E.121, H.122, T.125, M.129 11 PLIP interactions: 5 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:Q.46, A:T.75, A:A.79, A:A.80, A:W.83, B:T.125 Hydrogen bonds: B:E.121, B:H.122, B:T.125, B:T.125 Salt bridges: B:H.122

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) EDO.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 5 residues within 4Å: Chain A: E.20, K.22, R.117, H.122, L.123 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.123 Salt bridges: A:K.22, A:H.122 SO4.6: 5 residues within 4Å: Chain B: E.20, K.22, R.117, H.122, L.123 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.123 Salt bridges: B:K.22, B:H.122

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Eilers, G. et al., Structure of a HIV-1 IN-Allosteric inhibitor complex at 2.93 angstrom resolution: Routes to inhibitor optimization. Plos Pathog. (2023)

Release Date

2023-02-15

Peptides

Integrase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Integrase

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