SMTL ID : 6zjm.1

Atomic model of Andes virus glycoprotein spike tetramer generated by fitting into a Tula virus reconstruction

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-octamer

Ligands

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

NAG-NAG-BMA-MAN.1: 10 residues within 4Å: Chain E: L.29, N.118, T.120, H.121, I.268, Q.269, G.301, V.302, P.303 Chain F: F.647 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.2: 7 residues within 4Å: Chain E: P.260, N.330 Chain F: Y.492, T.498, S.499, K.500, F.502 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:Y.492, F:S.499, F:F.502 NAG-NAG-BMA-MAN.3: 10 residues within 4Å: Chain G: L.29, N.118, T.120, H.121, I.268, Q.269, G.301, V.302, P.303 Chain H: F.647 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.4: 7 residues within 4Å: Chain G: P.260, N.330 Chain H: Y.492, T.498, S.499, K.500, F.502 3 PLIP interactions: 3 interactions with chain H Hydrogen bonds: H:Y.492, H:S.499, H:F.502 NAG-NAG-BMA-MAN.5: 10 residues within 4Å: Chain C: L.29, N.118, T.120, H.121, I.268, Q.269, G.301, V.302, P.303 Chain D: F.647 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.6: 7 residues within 4Å: Chain C: P.260, N.330 Chain D: Y.492, T.498, S.499, K.500, F.502 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:Y.492, D:S.499, D:F.502 NAG-NAG-BMA-MAN.8: 10 residues within 4Å: Chain A: L.29, N.118, T.120, H.121, I.268, Q.269, G.301, V.302, P.303 Chain B: F.647 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.9: 7 residues within 4Å: Chain A: P.260, N.330 Chain B: Y.492, T.498, S.499, K.500, F.502 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.492, B:S.499, B:F.502

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.7: 6 residues within 4Å: Chain C: H.158, G.167, Q.168, N.921, N.958, G.959 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:G.167

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG.10: 4 residues within 4Å: Chain A: H.158, F.920, N.921, G.959 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.158, A:H.158 NAG.11: 3 residues within 4Å: Chain B: S.675, N.677, D.694 No protein-ligand interaction detected (PLIP) NAG.12: 3 residues within 4Å: Chain D: S.675, N.677, D.694 No protein-ligand interaction detected (PLIP) NAG.13: 3 residues within 4Å: Chain F: S.675, N.677, D.694 No protein-ligand interaction detected (PLIP) NAG.14: 7 residues within 4Å: Chain G: K.156, T.157, H.158, C.159, F.920, N.921, N.958 4 PLIP interactions: 4 interactions with chain G Hydrophobic interactions: G:F.920 Hydrogen bonds: G:H.158, G:H.158, G:N.921 NAG.15: 3 residues within 4Å: Chain H: S.675, N.677, D.694 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Serris, A. et al., The Hantavirus Surface Glycoprotein Lattice and Its Fusion Control Mechanism. Cell (2020)

Release Date

2020-10-14

Peptides

Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein,Envelope polyprotein