SMTL ID : 4fmj.1 (5 other biounits)

Merkel cell polyomavirus VP1 in complex with GD1a oligosaccharide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-pentamer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: N.131, H.133, Q.217, P.223, T.224, V.225, L.226 Ligands: CL.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.133, A:Q.217, A:P.223, A:V.225 GOL.4: 7 residues within 4Å: Chain C: N.131, H.133, Q.217, P.223, T.224, V.225 Ligands: CL.5 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:H.133, C:Q.217, C:P.223, C:V.225

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

CL.2: 6 residues within 4Å: Chain A: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.1 Ligand excluded by PLIP CL.3: 5 residues within 4Å: Chain B: N.131, H.133, S.215, I.216, Q.217 Ligand excluded by PLIP CL.5: 6 residues within 4Å: Chain C: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.4 Ligand excluded by PLIP CL.6: 5 residues within 4Å: Chain D: N.131, H.133, S.215, I.216, Q.217 Ligand excluded by PLIP CL.7: 5 residues within 4Å: Chain E: N.131, H.133, S.215, I.216, Q.217 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Neu, U. et al., Structures of Merkel Cell Polyomavirus VP1 Complexes Define a Sialic Acid Binding Site Required for Infection. Plos Pathog. (2012)

Release Date

2012-09-05

Peptides

VP1: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

VP1

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