SMTL ID : 8eep.3 (4 other biounits)

T=1 particle HIV-1 CA G60A/G61P

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

10 x IHP: INOSITOL HEXAKISPHOSPHATE(Non-covalent)(Covalent)

IHP.1: 14 residues within 4Å: Chain A: S.16, R.18 Chain B: S.16, R.18 Chain C: S.16, R.18 Chain D: S.16, R.18 Chain E: S.16, R.18 Ligands: IHP.3, IHP.5, IHP.7, IHP.9 13 PLIP interactions: 3 interactions with chain A, 3 interactions with chain E, 3 interactions with chain D, 2 interactions with chain C, 2 interactions with chain B Hydrogen bonds: A:S.16, E:S.16, D:S.16, C:S.16, B:S.16 Salt bridges: A:R.18, A:R.18, E:R.18, E:R.18, D:R.18, D:R.18, C:R.18, B:R.18 IHP.2: 13 residues within 4Å: Chain A: R.18, K.25 Chain B: R.18, A.22 Chain C: R.18, A.22, K.25 Chain D: K.25 Chain E: K.25 Ligands: IHP.4, IHP.6, IHP.8, IHP.10 12 PLIP interactions: 3 interactions with chain D, 2 interactions with chain C, 1 interactions with chain B, 3 interactions with chain A, 3 interactions with chain E Salt bridges: D:K.25, D:K.25, D:K.25, C:R.18, C:K.25, B:R.18, A:K.25, A:K.25, A:K.25, E:K.25, E:K.25, E:K.25 IHP.3: 14 residues within 4Å: Chain A: S.16, R.18 Chain B: S.16, R.18 Chain C: S.16, R.18 Chain D: S.16, R.18 Chain E: S.16, R.18 Ligands: IHP.1, IHP.5, IHP.7, IHP.9 13 PLIP interactions: 3 interactions with chain A, 3 interactions with chain E, 2 interactions with chain D, 2 interactions with chain C, 3 interactions with chain B Hydrogen bonds: A:S.16, E:S.16, D:S.16, C:S.16, B:S.16 Salt bridges: A:R.18, A:R.18, E:R.18, E:R.18, D:R.18, C:R.18, B:R.18, B:R.18 IHP.4: 13 residues within 4Å: Chain A: K.25 Chain B: R.18, K.25 Chain C: R.18, A.22 Chain D: R.18, A.22, K.25 Chain E: K.25 Ligands: IHP.2, IHP.6, IHP.8, IHP.10 12 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C, 3 interactions with chain A, 3 interactions with chain E, 3 interactions with chain B Salt bridges: D:R.18, D:K.25, C:R.18, A:K.25, A:K.25, A:K.25, E:K.25, E:K.25, E:K.25, B:K.25, B:K.25, B:K.25 IHP.5: 14 residues within 4Å: Chain A: S.16, R.18 Chain B: S.16, R.18 Chain C: S.16, R.18 Chain D: S.16, R.18 Chain E: S.16, R.18 Ligands: IHP.1, IHP.3, IHP.7, IHP.9 13 PLIP interactions: 3 interactions with chain A, 2 interactions with chain E, 2 interactions with chain D, 3 interactions with chain C, 3 interactions with chain B Hydrogen bonds: A:S.16, E:S.16, D:S.16, C:S.16, B:S.16 Salt bridges: A:R.18, A:R.18, E:R.18, D:R.18, C:R.18, C:R.18, B:R.18, B:R.18 IHP.6: 13 residues within 4Å: Chain A: K.25 Chain B: K.25 Chain C: R.18, K.25 Chain D: R.18, A.22 Chain E: R.18, A.22, K.25 Ligands: IHP.2, IHP.4, IHP.8, IHP.10 12 PLIP interactions: 2 interactions with chain E, 3 interactions with chain A, 1 interactions with chain D, 3 interactions with chain C, 3 interactions with chain B Salt bridges: E:R.18, E:K.25, A:K.25, A:K.25, A:K.25, D:R.18, C:K.25, C:K.25, C:K.25, B:K.25, B:K.25, B:K.25 IHP.7: 14 residues within 4Å: Chain A: S.16, R.18 Chain B: S.16, R.18 Chain C: S.16, R.18 Chain D: S.16, R.18 Chain E: S.16, R.18 Ligands: IHP.1, IHP.3, IHP.5, IHP.9 13 PLIP interactions: 2 interactions with chain A, 2 interactions with chain E, 3 interactions with chain D, 3 interactions with chain C, 3 interactions with chain B Hydrogen bonds: A:S.16, E:S.16, D:S.16, C:S.16, B:S.16 Salt bridges: A:R.18, E:R.18, D:R.18, D:R.18, C:R.18, C:R.18, B:R.18, B:R.18 IHP.8: 13 residues within 4Å: Chain A: R.18, A.22, K.25 Chain B: K.25 Chain C: K.25 Chain D: R.18, K.25 Chain E: R.18, A.22 Ligands: IHP.2, IHP.4, IHP.6, IHP.10 12 PLIP interactions: 2 interactions with chain A, 3 interactions with chain D, 1 interactions with chain E, 3 interactions with chain C, 3 interactions with chain B Salt bridges: A:R.18, A:K.25, D:K.25, D:K.25, D:K.25, E:R.18, C:K.25, C:K.25, C:K.25, B:K.25, B:K.25, B:K.25 IHP.9: 14 residues within 4Å: Chain A: S.16, R.18 Chain B: S.16, R.18 Chain C: S.16, R.18 Chain D: S.16, R.18 Chain E: S.16, R.18 Ligands: IHP.1, IHP.3, IHP.5, IHP.7 13 PLIP interactions: 2 interactions with chain A, 3 interactions with chain E, 3 interactions with chain D, 3 interactions with chain C, 2 interactions with chain B Hydrogen bonds: A:S.16, E:S.16, D:S.16, C:S.16, B:S.16 Salt bridges: A:R.18, E:R.18, E:R.18, D:R.18, D:R.18, C:R.18, C:R.18, B:R.18 IHP.10: 13 residues within 4Å: Chain A: R.18, A.22 Chain B: R.18, A.22, K.25 Chain C: K.25 Chain D: K.25 Chain E: R.18, K.25 Ligands: IHP.2, IHP.4, IHP.6, IHP.8 12 PLIP interactions: 1 interactions with chain A, 3 interactions with chain D, 2 interactions with chain B, 3 interactions with chain E, 3 interactions with chain C Salt bridges: A:R.18, D:K.25, D:K.25, D:K.25, B:R.18, B:K.25, E:K.25, E:K.25, E:K.25, C:K.25, C:K.25, C:K.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schirra, R.T. et al., A molecular switch modulates assembly and host factor binding of the HIV-1 capsid. Nat.Struct.Mol.Biol. (2023)

Release Date

2023-02-15

Peptides

Gag polyprotein: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

Gag polyprotein

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