SMTL ID : 8ua9.1

Structure of eastern equine encephalitis virus VLP unliganded quasi-threefold spike protein

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-4-4-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: V.34, N.134, W.142, S.144 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.142 Hydrogen bonds: A:N.134 NAG.2: 2 residues within 4Å: Chain B: K.276, N.315 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.276, B:K.276 NAG.3: 4 residues within 4Å: Chain E: V.34, N.134, W.142, S.144 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:W.142 Hydrogen bonds: E:S.144 NAG.4: 2 residues within 4Å: Chain F: K.276, N.315 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:K.276, F:N.315 NAG.5: 1 residues within 4Å: Chain G: N.8 No protein-ligand interaction detected (PLIP) NAG.6: 4 residues within 4Å: Chain I: V.34, N.134, W.142, S.144 2 PLIP interactions: 2 interactions with chain I Hydrophobic interactions: I:W.142 Hydrogen bonds: I:S.144 NAG.7: 3 residues within 4Å: Chain J: K.276, T.313, N.315 2 PLIP interactions: 2 interactions with chain J Hydrogen bonds: J:K.276, J:N.315 NAG.8: 4 residues within 4Å: Chain M: M.132, N.134, W.142, S.144 3 PLIP interactions: 3 interactions with chain M Hydrophobic interactions: M:W.142 Hydrogen bonds: M:N.134, M:S.144 NAG.9: 2 residues within 4Å: Chain N: K.276, N.315 2 PLIP interactions: 2 interactions with chain N Hydrogen bonds: N:K.276, N:N.315

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, P. et al., Structural basis for VLDLR recognition by eastern equine encephalitis virus. Nat Commun (2024)

Release Date

2024-08-14

Peptides

Envelope glycoprotein E1: AEIM
Structural polyprotein: BFJN
Structural polyprotein: CGKO
Capsid protein: DHLP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
E

I
I

M
M

B
B

F
F

J
J

N
N

C
C

G
G

K
K

O
O

D
D

H
H

L
L

P
P

Membrane

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

Structural polyprotein

Structural polyprotein

Capsid protein

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