SMTL ID : 8w9g.1

Hepatitis B virus core protein Y132A mutant in complex with CBT-078

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-hexamer

Ligands

6 x 5PT: 2-fluoranyl-N1-(4-fluorophenyl)-N3-(2-methylphenyl)benzene-1,3-dicarboxamide

5PT.1: 10 residues within 4Å: Chain A: F.23, P.25, L.30, T.33, W.102, I.105, S.106, Y.118, I.139, L.140 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.25, A:L.30, A:T.33, A:L.140, A:L.140 Hydrogen bonds: A:L.140 5PT.2: 16 residues within 4Å: Chain A: S.121, V.124, W.125, T.128, A.132, P.134 Chain F: P.25, L.30, T.33, W.102, I.105, S.106, F.110, Y.118, I.139, L.140 12 PLIP interactions: 5 interactions with chain F, 7 interactions with chain A Hydrophobic interactions: F:P.25, F:Y.118, F:L.140, F:L.140, A:V.124, A:V.124, A:W.125, A:T.128, A:P.134 Hydrogen bonds: F:L.140, A:T.128 pi-Stacking: A:W.125 5PT.3: 15 residues within 4Å: Chain B: P.25, L.30, T.33, W.102, I.105, S.106, Y.118, I.139, L.140 Chain C: S.121, V.124, W.125, T.128, A.132, P.134 9 PLIP interactions: 5 interactions with chain C, 4 interactions with chain B Hydrophobic interactions: C:V.124, C:T.128, C:P.134, B:P.25, B:L.30, B:I.105 Hydrogen bonds: C:T.128, B:L.140 pi-Stacking: C:W.125 5PT.4: 11 residues within 4Å: Chain C: F.23, P.25, L.30, T.33, W.102, I.105, S.106, Y.118, I.139, L.140, T.142 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:F.23, C:P.25, C:L.30, C:Y.118, C:L.140, C:T.142 Hydrogen bonds: C:L.140 5PT.5: 16 residues within 4Å: Chain D: F.23, P.25, L.30, T.33, W.102, I.105, S.106, Y.118, I.139, L.140 Chain E: S.121, V.124, W.125, T.128, A.132, P.134 13 PLIP interactions: 7 interactions with chain E, 6 interactions with chain D Hydrophobic interactions: E:V.124, E:V.124, E:W.125, E:T.128, E:P.134, D:P.25, D:L.30, D:Y.118, D:L.140, D:L.140 Hydrogen bonds: E:T.128, D:L.140 pi-Stacking: E:W.125 5PT.6: 9 residues within 4Å: Chain E: P.25, L.30, T.33, W.102, I.105, S.106, Y.118, I.139, L.140 6 PLIP interactions: 6 interactions with chain E Hydrophobic interactions: E:P.25, E:L.30, E:T.33, E:I.105, E:L.140 Hydrogen bonds: E:L.140

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ogawa, K. et al., Screening systems for the detection of hepatitis B virus replication and capsid assembly. To Be Published

Release Date

2024-09-11

Peptides

Capsid protein: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Capsid protein

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