SMTL ID : 8ifn.1

MERS-CoV spike trimer in complex with nanobody VHH-T148

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-mer

Ligands

3 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.1: 10 residues within 4Å: Chain A: N.410, T.412, K.413, K.587 Chain B: Y.29, V.100, D.117, Y.118, W.119 Chain E: R.511 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain E Hydrogen bonds: B:W.119, B:W.119, B:D.117, E:R.511 NAG-NAG-BMA-MAN.2: 10 residues within 4Å: Chain A: R.511 Chain C: N.410, T.412, K.413, K.587 Chain D: Y.29, V.100, D.117, Y.118, W.119 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:W.119, D:W.119, D:D.117, A:R.511 NAG-NAG-BMA-MAN.3: 10 residues within 4Å: Chain C: R.511 Chain E: N.410, T.412, K.413, K.587 Chain F: Y.29, V.100, D.117, Y.118, W.119 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain C Hydrogen bonds: F:W.119, F:W.119, F:D.117, C:R.511

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tian, L. et al., Structures and neutralizing mechanisms of camel nanobodies targeting the receptor-binding domain of MERS-CoV spike glycoprotein. To Be Published

Release Date

2024-02-28

Peptides

Spike glycoprotein: ACE
VHH-T148: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

C
C

E
E

B
A

D
D

F
F

Spike glycoprotein

VHH-T148

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