SMTL ID : 3pun.1

Crystal structure of P domain dimer of Norovirus VA207 with Lewis y tetrasaccharide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

2 x NDG- GAL- FUC- FUC: alpha-L-fucopyranose-(1-2)-beta-D-galactopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-alpha-D-glucopyranose

NDG-GAL-FUC-FUC.1: 11 residues within 4Å: Chain A: A.123, T.124, R.125, D.153 Chain B: Y.168, I.169, E.170, G.171, S.218, G.219, H.220 8 PLIP interactions: 4 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:A.123 Hydrogen bonds: A:R.125, A:R.125, A:D.153, B:G.219, B:Y.168, B:Y.168, B:S.218, B:S.218 NDG-GAL-FUC-FUC.2: 11 residues within 4Å: Chain A: Y.168, I.169, E.170, G.171, S.218, G.219, H.220 Chain B: A.123, T.124, R.125, D.153 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:G.219, B:R.125, B:R.125, B:D.153, A:Y.168, A:S.218, A:S.218 Hydrophobic interactions: B:A.123

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Y. et al., Crystallography of a Lewis-binding norovirus, elucidation of strain-specificity to the polymorphic human histo-blood group antigens. Plos Pathog. (2011)

Release Date

2011-08-03

Peptides

Capsid: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Capsid

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