SMTL ID : 5d7y.1 (3 other biounits)

Crystal structure of Hepatitis B virus T=4 capsid in complex with the allosteric modulator HAP18

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.89 Å

Oligo State

homo-tetramer

Ligands

2 x 58H: methyl (4R)-4-(2-chloro-4-fluorophenyl)-6-{[4-(3-hydroxypenta-1,4-diyn-3-yl)piperidin-1-yl]methyl}-2-(pyridin-2-yl)-1,4-dihydropyrimidine-5-carboxylate(Non-covalent)

58H.1: 17 residues within 4Å: Chain B: F.23, P.25, D.29, L.30, T.33, W.102, I.105, S.106, T.109, F.110, L.140 Chain C: V.124, W.125, T.128, Y.132, P.134, P.138 11 PLIP interactions: 5 interactions with chain C, 6 interactions with chain B Hydrophobic interactions: C:V.124, C:Y.132, C:P.134, C:P.138, B:F.23, B:P.25, B:L.30, B:I.105, B:F.110 Halogen bonds: C:T.128, B:D.29 58H.2: 7 residues within 4Å: Chain C: F.23, L.30, T.33, I.105, Y.118, L.140, S.141 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:F.23, C:F.23, C:I.105, C:Y.118 Halogen bonds: C:T.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Venkatakrishnan, B. et al., Hepatitis B Virus Capsids Have Diverse Structural Responses to Small-Molecule Ligands Bound to the Heteroaryldihydropyrimidine Pocket. J.Virol. (2016)

Release Date

2016-02-17

Peptides

Capsid protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Capsid protein

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