SMTL ID : 9cwv.1

Gag CA-SP1 immature lattice from intact enveloped virus-like particles

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-18-mer

Ligands

7 x IHP: INOSITOL HEXAKISPHOSPHATE(Non-covalent)

IHP.1: 4 residues within 4Å: Chain B: K.147, K.216 Chain C: K.147, K.216 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain C Salt bridges: B:K.147, B:K.216, B:K.216, C:K.147, C:K.216, C:K.216 IHP.2: 4 residues within 4Å: Chain E: K.147, K.216 Chain F: K.147, K.216 6 PLIP interactions: 3 interactions with chain E, 3 interactions with chain F Salt bridges: E:K.147, E:K.216, E:K.216, F:K.147, F:K.216, F:K.216 IHP.3: 4 residues within 4Å: Chain H: K.147, K.216 Chain I: K.147, K.216 7 PLIP interactions: 4 interactions with chain H, 3 interactions with chain I Hydrogen bonds: H:K.147 Salt bridges: H:K.147, H:K.216, H:K.216, I:K.147, I:K.216, I:K.216 IHP.4: 12 residues within 4Å: Chain A: K.147, K.216 Chain D: K.147, K.216 Chain G: K.147, K.216 Chain J: K.147, K.216 Chain M: K.147, K.216 Chain P: K.147, K.216 27 PLIP interactions: 3 interactions with chain A, 5 interactions with chain M, 4 interactions with chain D, 4 interactions with chain P, 6 interactions with chain G, 5 interactions with chain J Salt bridges: A:K.147, A:K.216, A:K.216, M:K.147, M:K.147, M:K.216, M:K.216, M:K.216, D:K.147, D:K.216, D:K.216, D:K.216, P:K.147, P:K.147, P:K.216, P:K.216, G:K.147, G:K.147, G:K.216, G:K.216, G:K.216, J:K.147, J:K.147, J:K.216, J:K.216, J:K.216 Hydrogen bonds: G:G.211 IHP.5: 4 residues within 4Å: Chain K: K.147, K.216 Chain L: K.147, K.216 7 PLIP interactions: 3 interactions with chain L, 4 interactions with chain K Salt bridges: L:K.147, L:K.216, L:K.216, K:K.147, K:K.216, K:K.216 Hydrogen bonds: K:K.147 IHP.6: 4 residues within 4Å: Chain N: K.147, K.216 Chain O: K.147, K.216 6 PLIP interactions: 3 interactions with chain N, 3 interactions with chain O Salt bridges: N:K.147, N:K.216, N:K.216, O:K.147, O:K.216, O:K.216 IHP.7: 4 residues within 4Å: Chain Q: K.147, K.216 Chain R: K.147, K.216 6 PLIP interactions: 3 interactions with chain R, 3 interactions with chain Q Salt bridges: R:K.147, R:K.216, R:K.216, Q:K.147, Q:K.216, Q:K.216

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, C. et al., Structural insights into inhibitor mechanisms on immature HIV-1 Gag lattice revealed by high-resolution in situ single-particle cryo-EM. Biorxiv (2024)

Release Date

2024-10-30

Peptides

Gag: ABCDEFGHIJKLMNOPQR

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
B

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

M
M

N
N

O
O

P
P

Q
Q

R
R

Gag