SMTL ID : 8deq.1

Cryo-EM local refinement of antibody SKV09 in complex with VEEV alphavirus spike glycoprotein

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-6-1-1-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: T.32, N.134, V.143 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.32, A:N.134 NAG.2: 3 residues within 4Å: Chain B: T.32, N.134, V.143 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.32, B:N.134 NAG.3: 3 residues within 4Å: Chain C: T.32, N.134, V.143 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.32, C:N.134 NAG.4: 3 residues within 4Å: Chain D: T.32, N.134, V.143 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:T.32, D:N.134 NAG.5: 3 residues within 4Å: Chain E: T.32, N.134, V.143 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:T.32, E:N.134 NAG.6: 3 residues within 4Å: Chain F: T.32, N.134, V.143 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:T.32, F:N.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sutton, M.S. et al., Vaccine elicitation and structural basis for antibody protection against alphaviruses. Cell (2023)

Release Date

2023-06-28

Peptides

Spike glycoprotein E1: ABCDEF
SKV09 Fab Heavy Chain: G
SKV09 Fab Light Chain: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
H

H
L

Spike glycoprotein E1

SKV09 Fab Heavy Chain

SKV09 Fab Light Chain

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