SMTL ID : 5j81.1

Crystal structure of Glycoprotein C from Puumala virus in the post-fusion conformation (pH 6.0)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-trimer

Ligands

3 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 12 residues within 4Å: Chain A: L.201, Q.206, G.207, G.208, L.209, K.272, F.278, N.279 Chain B: V.338, N.341, H.382, V.384 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.201, A:L.209 Water bridges: A:K.272 NAG-NAG-BMA.5: 12 residues within 4Å: Chain B: L.201, Q.206, G.207, G.208, L.209, K.272, F.278, N.279 Chain C: V.338, N.341, H.382, V.384 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.201, B:L.209 Water bridges: B:K.272 NAG-NAG-BMA.9: 12 residues within 4Å: Chain A: V.338, N.341, H.382, V.384 Chain C: L.201, Q.206, G.207, G.208, L.209, K.272, F.278, N.279 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.201, C:L.209 Water bridges: C:K.272

3 x P33: 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL(Non-covalent)

P33.2: 10 residues within 4Å: Chain A: D.324, L.325, A.326, T.327, A.328, T.345, S.347, Q.378, S.404, T.405 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.324, A:S.347 Water bridges: A:T.327 P33.6: 10 residues within 4Å: Chain B: D.324, L.325, A.326, T.327, A.328, T.345, S.347, Q.378, S.404, T.405 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.324, B:S.347 Water bridges: B:T.327 P33.10: 10 residues within 4Å: Chain C: D.324, L.325, A.326, T.327, A.328, T.345, S.347, Q.378, S.404, T.405 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:D.324, C:S.347 Water bridges: C:T.327

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 4 residues within 4Å: Chain A: H.14, S.357, K.359, D.399 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:S.357, A:D.399 Water bridges: A:K.359, A:K.359, C:R.300, C:R.300 Salt bridges: A:H.14, A:K.359 SO4.7: 4 residues within 4Å: Chain B: H.14, S.357, K.359, D.399 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.357, B:D.399 Water bridges: B:K.359, B:K.359, A:R.300, A:R.300 Salt bridges: B:H.14, B:K.359 SO4.11: 4 residues within 4Å: Chain C: H.14, S.357, K.359, D.399 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:S.357, C:D.399 Water bridges: C:K.359, C:K.359, B:R.300, B:R.300 Salt bridges: C:H.14, C:K.359

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

ACT.4: 2 residues within 4Å: Chain A: E.350, R.376 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.350 ACT.8: 2 residues within 4Å: Chain B: E.350, R.376 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.350 ACT.12: 2 residues within 4Å: Chain C: E.350, R.376 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.350

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Willensky, S. et al., Crystal Structure of Glycoprotein C from a Hantavirus in the Post-fusion Conformation. Plos Pathog. (2016)

Release Date

2016-10-05

Peptides

Envelopment polyprotein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Envelopment polyprotein

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