SMTL ID : 8xi4.1

Structure of Eastern Equine Encephalitis VLP in complex with the receptor VLDLR LA1-2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-4-4-mer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 7 residues within 4Å: Chain M: W.20, C.22, D.23, D.25, D.27, D.33, E.34 5 PLIP interactions: 5 interactions with chain M Metal complexes: M:W.20, M:D.23, M:D.25, M:D.33, M:E.34 CA.2: 6 residues within 4Å: Chain M: W.59, D.62, D.64, D.66, D.72, E.73 5 PLIP interactions: 5 interactions with chain M Metal complexes: M:D.62, M:D.64, M:D.66, M:D.72, M:E.73 CA.3: 8 residues within 4Å: Chain E: K.156 Chain N: W.20, C.22, D.23, D.25, D.27, D.33, E.34 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:D.23, N:D.25, N:D.33, N:E.34 CA.4: 6 residues within 4Å: Chain N: W.59, D.62, D.64, D.66, D.72, E.73 5 PLIP interactions: 5 interactions with chain N Metal complexes: N:W.59, N:D.62, N:D.64, N:D.66, N:D.72 CA.5: 6 residues within 4Å: Chain O: W.20, D.23, D.25, D.27, D.33, E.34 5 PLIP interactions: 5 interactions with chain O Metal complexes: O:W.20, O:D.23, O:D.25, O:D.33, O:E.34 CA.6: 6 residues within 4Å: Chain O: W.59, D.62, D.64, D.66, D.72, E.73 5 PLIP interactions: 5 interactions with chain O Metal complexes: O:W.59, O:D.62, O:D.66, O:D.72, O:E.73 CA.7: 7 residues within 4Å: Chain P: W.20, D.23, G.24, D.25, D.27, D.33, E.34 5 PLIP interactions: 5 interactions with chain P Metal complexes: P:D.23, P:D.23, P:D.25, P:D.27, P:E.34 CA.8: 6 residues within 4Å: Chain P: W.59, D.62, D.64, D.66, D.72, E.73 4 PLIP interactions: 4 interactions with chain P Metal complexes: P:W.59, P:D.62, P:D.64, P:D.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cao, D. et al., The receptor VLDLR binds Eastern Equine Encephalitis virus through multiple distinct modes. Nat Commun (2024)

Release Date

2024-08-28

Peptides

Spike glycoprotein E1: ADGJ
Spike glycoprotein E2: BEHK
Capsid protein: CFIL
Very low-density lipoprotein receptor: MNOP

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

M
M

N
N

O
O

P
P

Membrane

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

Spike glycoprotein E2

Capsid protein

Very low-density lipoprotein receptor

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