SMTL ID : 8dan.1

CryoEM structure of Western equine encephalitis virus VLP in complex with the avian MXRA8 receptor

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-4-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: N.139, H.327 Chain C: E.99, K.128 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.128 NAG.2: 4 residues within 4Å: Chain B: N.195, S.211, T.212, R.230 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:N.195 NAG.3: 3 residues within 4Å: Chain C: P.81, N.89, S.91 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.89 NAG.4: 4 residues within 4Å: Chain D: N.139, H.327 Chain F: E.99, K.128 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:K.128 NAG.5: 4 residues within 4Å: Chain E: N.195, S.211, T.212, R.230 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:N.195 NAG.6: 3 residues within 4Å: Chain F: P.81, N.89, S.91 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:N.89 NAG.7: 4 residues within 4Å: Chain G: N.139, H.327 Chain I: E.99, K.128 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:K.128 NAG.8: 4 residues within 4Å: Chain H: N.195, S.211, T.212, R.230 1 PLIP interactions: 1 interactions with chain H Hydrophobic interactions: H:N.195 NAG.9: 4 residues within 4Å: Chain D: S.98 Chain I: P.81, N.89, S.91 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:N.89 NAG.10: 4 residues within 4Å: Chain J: N.139, H.327 Chain L: E.99, K.128 2 PLIP interactions: 2 interactions with chain L Hydrophobic interactions: L:K.128 Hydrogen bonds: L:K.128 NAG.11: 4 residues within 4Å: Chain K: N.195, S.211, T.212, R.230 1 PLIP interactions: 1 interactions with chain K Hydrophobic interactions: K:N.195 NAG.12: 3 residues within 4Å: Chain L: P.81, N.89, S.91 1 PLIP interactions: 1 interactions with chain L Hydrogen bonds: L:N.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zimmerman, O. et al., Alternate domain repeat usage in an alphavirus entry receptor enables host species expansion. To Be Published

Release Date

2023-12-20

Peptides

E1 envelope glycoprotein: ADGJ
E2 envelope glycoprotein: BEHK
Matrix remodeling-associated protein 8: CFIL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

G
G

J
J

B
B

E
E

H
H

K
K

C
C

F
F

I
I

L
L

Membrane

We predict this structure to be a membrane protein.
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E1 envelope glycoprotein

E2 envelope glycoprotein

Matrix remodeling-associated protein 8

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