SMTL ID : 3s7x.1

Unassembled Washington University Polyomavirus VP1 Pentamer R198K Mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-pentamer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: L.108, T.109, K.245, N.246 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.109, A:K.245, A:K.245 GOL.6: 3 residues within 4Å: Chain B: L.108, T.109, K.245 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.109 GOL.8: 3 residues within 4Å: Chain C: L.108, T.109, K.245 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.109, C:K.245 GOL.10: 3 residues within 4Å: Chain D: L.108, T.109, K.245 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:T.109, D:K.245 GOL.14: 3 residues within 4Å: Chain E: L.108, T.109, K.245 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:T.109, E:K.245

5 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 2 residues within 4Å: Chain A: S.164 Chain E: K.28 Ligand excluded by PLIP CL.3: 2 residues within 4Å: Chain A: K.28 Chain B: S.164 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain B: K.28 Chain C: S.164 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain C: K.28 Chain D: S.163, S.164, S.165 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain D: K.28 Chain E: S.164 Ligand excluded by PLIP

5 x NA: SODIUM ION(Non-functional Binders)

NA.4: 3 residues within 4Å: Chain A: E.96, S.211, S.214 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.211, A:S.214, A:S.214 NA.7: 2 residues within 4Å: Chain B: E.96, S.211 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.96 NA.9: 2 residues within 4Å: Chain C: E.96, S.211 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.209 NA.13: 2 residues within 4Å: Chain D: E.96, S.211 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.96, D:S.211, D:S.214 NA.15: 2 residues within 4Å: Chain E: E.96, S.211 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:E.96, E:S.211, E:S.214

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Neu, U. et al., Structures of the major capsid proteins of the human KI and WU polyomaviruses. J.Virol. (2011)

Release Date

2011-06-29

Peptides

Major capsid protein VP1: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Major capsid protein VP1