SMTL ID : 8h08.1

SARS-CoV-2 BA.1 variants S ectodomain trimer in complex with neutralizing antibody 10-5B and 6-2C

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-3-3-mer

Ligands

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

NAG.1: 6 residues within 4Å: Chain A: D.336, F.339, N.340, V.364 Chain N: H.104, W.105 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.339, A:V.364 Hydrogen bonds: A:D.336 NAG.2: 6 residues within 4Å: Chain B: D.336, F.339, N.340, V.364 Chain J: H.104, W.105 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.339, B:V.364 Hydrogen bonds: B:D.336 NAG.3: 6 residues within 4Å: Chain C: D.336, F.339, N.340, V.364 Chain F: H.104, W.105 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:F.339, C:V.364 Hydrogen bonds: C:D.336

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Y. et al., Inactivated vaccine-elicited potent antibodies can broadly neutralize SARS-CoV-2 circulating variants. Nat Commun (2023)

Release Date

2023-05-31

Peptides

Spike glycoprotein: ABC
10-5B H chain: DHL
10-5B L chain: EIM
6-2C H chain: FJN
6-2C L chain: GKO

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

H
F

L
L

E
J

I
H

M
P

F
N

J
I

N
Q

G
O

K
K

O
R

Spike glycoprotein

10-5B H chain

10-5B L chain

6-2C H chain

6-2C L chain

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