SMTL ID : 8vc0.1 (1 other biounit)

HIV-1 CA crosslinked pentamer in complex with GS-CA1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.46 Å

Oligo State

homo-pentamer

Ligands

5 x 01: N-[(1S)-1-{(3M)-3-{4-chloro-3-[(cyclopropanesulfonyl)amino]-1-(2,2-difluoroethyl)-1H-indazol-7-yl}-6-[3-(methanesulfonyl)-3-methylbut-1-yn-1-yl]pyridin-2-yl}-2-(3,5-difluorophenyl)ethyl]-2-[(3bS,4aR)-3-(difluoromethyl)-5,5-difluoro-3b,4,4a,5-tetrahydro-1H-cyclopropa[3,4]cyclopenta[1,2-c]pyrazol-1-yl]acetamide

01.1: 22 residues within 4Å: Chain A: N.53, T.54, L.56, N.57, Q.63, M.66, Q.67, L.69, K.70, I.73, N.74, A.105, G.106, T.107, Y.130 Chain E: P.38, S.41, Y.169, L.172, R.173, K.182, N.183 15 PLIP interactions: 12 interactions with chain A, 3 interactions with chain E Hydrophobic interactions: A:N.53, A:L.56, A:K.70, A:A.105, A:T.107, E:Y.169, E:Y.169 Hydrogen bonds: A:N.57, A:N.57, A:K.70, A:N.74, A:N.74, E:K.182 pi-Cation interactions: A:K.70, A:K.70 01.2: 22 residues within 4Å: Chain A: P.38, S.41, Y.169, L.172, R.173, Q.179 Chain B: Q.50, N.53, T.54, L.56, N.57, Q.63, M.66, Q.67, L.69, K.70, I.73, N.74, A.105, G.106, T.107, Y.130 12 PLIP interactions: 2 interactions with chain A, 10 interactions with chain B Hydrophobic interactions: A:Y.169, B:L.56, B:K.70, B:A.105 Hydrogen bonds: A:Q.179, B:N.57, B:N.57, B:K.70, B:N.74, B:N.74 pi-Cation interactions: B:K.70, B:K.70 01.3: 21 residues within 4Å: Chain B: P.38, S.41, Y.169, L.172, R.173 Chain C: Q.50, N.53, T.54, L.56, N.57, Q.63, M.66, Q.67, L.69, K.70, I.73, N.74, A.105, G.106, T.107, Y.130 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:L.56, C:L.56, C:K.70, C:A.105, C:T.107 Hydrogen bonds: C:N.57, C:N.57, C:K.70, C:N.74 pi-Cation interactions: C:K.70, C:K.70 Halogen bonds: C:N.74 01.4: 20 residues within 4Å: Chain C: P.38, S.41, Y.169, L.172, R.173 Chain D: N.53, T.54, L.56, N.57, Q.63, M.66, Q.67, L.69, K.70, I.73, N.74, A.105, G.106, T.107, Y.130 11 PLIP interactions: 11 interactions with chain D Hydrophobic interactions: D:L.56, D:L.56, D:K.70, D:A.105, D:T.107 Hydrogen bonds: D:N.57, D:N.57, D:K.70, D:N.74 pi-Cation interactions: D:K.70, D:K.70 01.5: 21 residues within 4Å: Chain D: P.38, S.41, Y.169, L.172, R.173 Chain E: Q.50, N.53, T.54, L.56, N.57, Q.63, M.66, Q.67, L.69, K.70, I.73, N.74, A.105, G.106, T.107, Y.130 11 PLIP interactions: 11 interactions with chain E Hydrophobic interactions: E:N.53, E:L.56, E:L.56, E:K.70, E:A.105, E:T.107 Hydrogen bonds: E:N.57, E:N.57, E:K.70, E:N.74 pi-Cation interactions: E:K.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Piacentini, J. et al., Structure of disulfide-stabilized HIV-1 CA pentamer in complex with the ultra-potent capsid inhibitor, GS-CA1. To Be Published

Release Date

2025-03-19

Peptides

Capsid protein p24: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Capsid protein p24

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