SMTL ID : 5opg.1

Structure of the Hantaan virus Gn glycoprotein ectodomain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: F.35, G.36, Y.120, R.123, H.149 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.120 Salt bridges: A:R.123, A:H.149 SO4.2: 2 residues within 4Å: Chain A: K.216, T.332 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.332 Water bridges: A:N.239, A:Q.242, A:Q.242 Salt bridges: A:K.216 SO4.8: 5 residues within 4Å: Chain B: F.35, G.36, Y.120, R.123, H.149 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.120 Salt bridges: B:R.123, B:H.149 SO4.9: 2 residues within 4Å: Chain B: K.216, T.332 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.332 Water bridges: B:N.239, B:Q.242, B:Q.242 Salt bridges: B:K.216 SO4.15: 5 residues within 4Å: Chain C: F.35, G.36, Y.120, R.123, H.149 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Y.120 Salt bridges: C:R.123, C:H.149 SO4.16: 2 residues within 4Å: Chain C: K.216, T.332 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:T.332 Water bridges: C:N.239, C:Q.242, C:Q.242 Salt bridges: C:K.216 SO4.22: 5 residues within 4Å: Chain D: F.35, G.36, Y.120, R.123, H.149 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:Y.120 Salt bridges: D:R.123, D:H.149 SO4.23: 2 residues within 4Å: Chain D: K.216, T.332 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:T.332 Water bridges: D:N.239, D:Q.242, D:Q.242 Salt bridges: D:K.216

16 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 1 residues within 4Å: Chain A: N.218 Ligand excluded by PLIP GOL.4: 7 residues within 4Å: Chain A: S.92, Q.93, N.94, S.95, F.96 Chain D: E.224, K.228 Ligand excluded by PLIP GOL.5: 5 residues within 4Å: Chain A: N.38, T.177, V.179, P.188, N.252 Ligand excluded by PLIP GOL.6: 5 residues within 4Å: Chain A: W.82, R.83, G.84, S.135 Chain D: D.262 Ligand excluded by PLIP GOL.10: 1 residues within 4Å: Chain B: N.218 Ligand excluded by PLIP GOL.11: 7 residues within 4Å: Chain B: S.92, Q.93, N.94, S.95, F.96 Chain C: E.224, K.228 Ligand excluded by PLIP GOL.12: 5 residues within 4Å: Chain B: N.38, T.177, V.179, P.188, N.252 Ligand excluded by PLIP GOL.13: 5 residues within 4Å: Chain B: W.82, R.83, G.84, S.135 Chain C: D.262 Ligand excluded by PLIP GOL.17: 1 residues within 4Å: Chain C: N.218 Ligand excluded by PLIP GOL.18: 7 residues within 4Å: Chain A: E.224, K.228 Chain C: S.92, Q.93, N.94, S.95, F.96 Ligand excluded by PLIP GOL.19: 5 residues within 4Å: Chain C: N.38, T.177, V.179, P.188, N.252 Ligand excluded by PLIP GOL.20: 5 residues within 4Å: Chain A: D.262 Chain C: W.82, R.83, G.84, S.135 Ligand excluded by PLIP GOL.24: 1 residues within 4Å: Chain D: N.218 Ligand excluded by PLIP GOL.25: 7 residues within 4Å: Chain B: E.224, K.228 Chain D: S.92, Q.93, N.94, S.95, F.96 Ligand excluded by PLIP GOL.26: 5 residues within 4Å: Chain D: N.38, T.177, V.179, P.188, N.252 Ligand excluded by PLIP GOL.27: 5 residues within 4Å: Chain B: D.262 Chain D: W.82, R.83, G.84, S.135 Ligand excluded by PLIP

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.7: 9 residues within 4Å: Chain A: N.134, T.136, F.137, S.317, G.318, I.319, P.320 Chain D: D.262, F.264 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain D Hydrogen bonds: A:T.136 Water bridges: A:S.135, D:D.262, D:F.264 Hydrophobic interactions: D:F.264 NAG.14: 9 residues within 4Å: Chain B: N.134, T.136, F.137, S.317, G.318, I.319, P.320 Chain C: D.262, F.264 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:F.264 Water bridges: C:D.262, C:F.264, B:S.135 Hydrogen bonds: B:T.136 NAG.21: 9 residues within 4Å: Chain A: D.262, F.264 Chain C: N.134, T.136, F.137, S.317, G.318, I.319, P.320 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:F.264 Water bridges: A:D.262, A:F.264, C:S.135 Hydrogen bonds: C:T.136 NAG.28: 9 residues within 4Å: Chain B: D.262, F.264 Chain D: N.134, T.136, F.137, S.317, G.318, I.319, P.320 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:F.264 Water bridges: B:D.262, B:F.264, D:S.135 Hydrogen bonds: D:T.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rissanen, I. et al., Structural Transitions of the Conserved and Metastable Hantaviral Glycoprotein Envelope. J. Virol. (2017)

Release Date

2017-08-23

Peptides

envelope glycoprotein Gn: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

envelope glycoprotein Gn