SMTL ID : 7b69.1 (1 other biounit)

BK Polyomavirus VP1 pentamer core(residues 26-299) mutant C104S

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.47 Å

Oligo State

homo-pentamer

Ligands

13 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.1: 6 residues within 4Å: Chain A: H.126, F.128, F.197, G.198, T.199, R.260 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.199 DMS.2: 5 residues within 4Å: Chain A: T.93, E.94, H.211, T.213, A.216 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.94 DMS.3: 6 residues within 4Å: Chain B: H.126, F.128, F.197, G.198, T.199, R.260 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.199 DMS.4: 6 residues within 4Å: Chain B: T.93, E.94, H.211, V.212, T.213, A.216 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:E.94 DMS.5: 6 residues within 4Å: Chain C: H.126, F.128, F.197, G.198, T.199, R.260 No protein-ligand interaction detected (PLIP) DMS.6: 3 residues within 4Å: Chain C: N.166, T.167, D.168 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.167 Salt bridges: C:D.168 DMS.7: 5 residues within 4Å: Chain C: T.93, E.94, H.211, T.213, A.216 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:E.94 DMS.8: 6 residues within 4Å: Chain D: H.126, F.128, F.197, G.198, T.199, R.260 No protein-ligand interaction detected (PLIP) DMS.9: 6 residues within 4Å: Chain D: T.93, E.94, H.211, V.212, T.213, A.216 1 PLIP interactions: 1 interactions with chain D Salt bridges: D:E.94 DMS.10: 6 residues within 4Å: Chain E: H.126, F.128, F.197, G.198, T.199, R.260 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:T.199 DMS.11: 1 residues within 4Å: Chain E: D.150 1 PLIP interactions: 1 interactions with chain E Salt bridges: E:D.150 DMS.12: 5 residues within 4Å: Chain E: S.146, K.147, Y.148, T.154, P.155 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:Y.148 DMS.13: 6 residues within 4Å: Chain E: T.93, E.94, H.211, V.212, T.213, A.216 1 PLIP interactions: 1 interactions with chain E Salt bridges: E:E.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Osipov, E.M. et al., Discovery of novel druggable pockets on polyomavirus VP1 through crystallographic fragment-based screening to develop capsid assembly inhibitors. Rsc Chem Biol (2022)

Release Date

2022-06-22

Peptides

Major capsid protein VP1: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

C
CCC

D
DDD

E
EEE

Major capsid protein VP1

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