SMTL ID : 6egt.1

Structure of RVFV envelope protein Gc in postfusion conformation in complex with MES

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-trimer

Ligands

1 x NAG- FUL: beta-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUL.1: 2 residues within 4Å: Chain A: N.387 Chain C: E.17 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Water bridges: A:T.389 Hydrogen bonds: C:E.17, A:N.387

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

NAG.2: 1 residues within 4Å: Chain A: N.104 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.104 NAG.3: 5 residues within 4Å: Chain A: L.344, N.345, T.347, C.359, D.391 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.391 Water bridges: A:N.345 NAG.4: 1 residues within 4Å: Chain B: N.104 1 PLIP interactions: 1 interactions with chain B Water bridges: B:N.104 NAG.5: 5 residues within 4Å: Chain B: L.344, N.345, T.347, C.359, D.391 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.345, B:D.391, B:D.391 NAG.6: 1 residues within 4Å: Chain B: N.387 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.387 NAG.8: 1 residues within 4Å: Chain C: N.104 No protein-ligand interaction detected (PLIP) NAG.9: 5 residues within 4Å: Chain C: L.344, N.345, T.347, C.359, D.391 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:D.391 Water bridges: C:N.345, C:R.357 NAG.10: 2 residues within 4Å: Chain C: T.365, N.387 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.387

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.7: 6 residues within 4Å: Chain B: R.85, R.86, C.87, V.90, D.271, N.444 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.85, B:C.87 Salt bridges: B:R.86, B:D.271 MES.11: 5 residues within 4Å: Chain C: R.85, R.86, C.87, V.90, G.134 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:R.85, C:C.87 Salt bridges: C:R.86, C:D.271

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guardado-Calvo, P. et al., A glycerophospholipid-specific pocket in the RVFV class II fusion protein drives target membrane insertion. Science (2017)

Release Date

2017-11-01

Peptides

Glycoprotein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Glycoprotein

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