SMTL ID : 7kej.1

BDBV-289 bound to EBOV GPdMuc Makona

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-3-mer

Ligands

3 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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-MAN.1: 9 residues within 4Å: Chain A: L.74, K.159, E.160, V.184 Chain D: Q.48, P.49, N.103, T.106 Chain H: F.75 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:P.49 NAG-NAG-BMA-MAN-MAN.2: 9 residues within 4Å: Chain E: L.74, K.159, E.160, V.184 Chain H: Q.48, P.49, N.103, T.106 Chain L: F.75 1 PLIP interactions: 1 interactions with chain H Hydrophobic interactions: H:P.49 NAG-NAG-BMA-MAN-MAN.3: 9 residues within 4Å: Chain D: F.75 Chain I: L.74, K.159, E.160, V.184 Chain L: Q.48, P.49, N.103, T.106 1 PLIP interactions: 1 interactions with chain L Hydrophobic interactions: L:P.49

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

NAG.4: 4 residues within 4Å: Chain A: T.221, L.258, N.261, Y.265 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.258 Hydrogen bonds: A:N.261 NAG.5: 1 residues within 4Å: Chain A: N.272 No protein-ligand interaction detected (PLIP) NAG.6: 3 residues within 4Å: Chain A: T.231, N.232, E.233 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.231, A:N.232 NAG.7: 4 residues within 4Å: Chain E: T.221, L.258, N.261, Y.265 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:L.258 Hydrogen bonds: E:N.261 NAG.8: 1 residues within 4Å: Chain E: N.272 No protein-ligand interaction detected (PLIP) NAG.9: 3 residues within 4Å: Chain E: T.231, N.232, E.233 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:T.231, E:N.232 NAG.10: 4 residues within 4Å: Chain I: T.221, L.258, N.261, Y.265 2 PLIP interactions: 2 interactions with chain I Hydrophobic interactions: I:L.258 Hydrogen bonds: I:N.261 NAG.11: 1 residues within 4Å: Chain I: N.272 No protein-ligand interaction detected (PLIP) NAG.12: 3 residues within 4Å: Chain I: T.231, N.232, E.233 2 PLIP interactions: 2 interactions with chain I Hydrogen bonds: I:T.231, I:N.232

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Murin, C.D. et al., Convergence of a common solution for broad ebolavirus neutralization by glycan cap-directed human antibodies. Cell Rep (2021)

Release Date

2021-06-23

Peptides

Virion spike glycoprotein: AEI
Antibody Fab heavy chain (HC) BDBV-289: BFJ
Antibody Fab light chain (LC) BDBV-289: CGK
Virion spike glycoprotein: DHL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

E
C

I
A

B
H

F
I

J
G

C
K

G
L

K
J

D
E

H
F

L
D

Virion spike glycoprotein

Antibody Fab heavy chain (HC) BDBV-289

Antibody Fab light chain (LC) BDBV-289

Virion spike glycoprotein

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