SMTL ID : 2zl6.1

Atomic resolution structural characterization of recognition of histo-blood group antigens by Norwalk virus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.43 Å

Oligo State

homo-dimer

Ligands

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

BGC-GAL-NAG-GAL-FUC.1: 9 residues within 4Å: Chain A: S.114 Chain B: D.103, H.105, Q.118, D.120, W.151, S.153, P.154, S.156 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain B Water bridges: A:S.115, B:D.103, B:Q.118, B:S.156 Hydrogen bonds: B:H.105, B:Q.118, B:D.120, B:D.103, B:H.105, B:S.153, B:S.153

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: P.10, L.12, Y.217, V.276, F.277 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:P.10, A:L.12, A:Y.217 MG.4: 5 residues within 4Å: Chain B: P.10, L.12, Y.217, V.276, F.277 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:P.10, B:L.12, B:Y.217

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 5 residues within 4Å: Chain A: K.65, F.111, V.146 Chain B: L.24, P.25 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.111 Salt bridges: A:K.65

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Choi, J.M. et al., Atomic resolution structural characterization of recognition of histo-blood group antigens by Norwalk virus. Proc.Natl.Acad.Sci.Usa (2008)

Release Date

2008-07-22

Peptides

58 kd capsid protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

58 kd capsid protein

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