SMTL ID : 7kfh.1

Ebola virus GP (mucin deleted, Makona strain) bound to antibody Fab EBOV-437

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-3-mer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain A: T.221, L.258, N.261, Y.265 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 4 residues within 4Å: Chain E: T.221, L.258, N.261, Y.265 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain I: T.221, L.258, N.261, Y.265 No protein-ligand interaction detected (PLIP)

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.2: 10 residues within 4Å: Chain A: L.74, E.160, A.162, V.184 Chain C: Q.48, N.103, T.106 Chain G: G.68, L.69, F.75 1 PLIP interactions: 1 interactions with chain G Hydrophobic interactions: G:L.69 NAG-NAG-BMA-MAN-MAN.4: 10 residues within 4Å: Chain E: L.74, E.160, A.162, V.184 Chain G: Q.48, N.103, T.106 Chain K: G.68, L.69, F.75 1 PLIP interactions: 1 interactions with chain K Hydrophobic interactions: K:L.69 NAG-NAG-BMA-MAN-MAN.6: 10 residues within 4Å: Chain C: G.68, L.69, F.75 Chain I: L.74, E.160, A.162, V.184 Chain K: Q.48, N.103, T.106 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.69

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

NAG.7: 1 residues within 4Å: Chain A: N.242 No protein-ligand interaction detected (PLIP) NAG.8: 2 residues within 4Å: Chain A: N.272 Chain D: E.105 No protein-ligand interaction detected (PLIP) NAG.9: 2 residues within 4Å: Chain A: N.232, E.233 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:E.233 NAG.10: 1 residues within 4Å: Chain E: N.242 No protein-ligand interaction detected (PLIP) NAG.11: 2 residues within 4Å: Chain E: N.272 Chain H: E.105 No protein-ligand interaction detected (PLIP) NAG.12: 2 residues within 4Å: Chain E: N.232, E.233 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:E.233 NAG.13: 1 residues within 4Å: Chain I: N.242 No protein-ligand interaction detected (PLIP) NAG.14: 2 residues within 4Å: Chain I: N.272 Chain L: E.105 No protein-ligand interaction detected (PLIP) NAG.15: 2 residues within 4Å: Chain I: N.232, E.233 1 PLIP interactions: 1 interactions with chain I Hydrophobic interactions: I:E.233

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

2021-04-28

Peptides

Virion spike glycoprotein 1: AEI
Antibody Fab EBOV-437 light chain: BFJ
Virion spike glycoprotein 2: CGK
Antibody Fab EBOV-437 heavy chain: DHL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
B

I
C

B
J

F
K

J
L

C
D

G
E

K
F

D
G

H
H

L
I

Virion spike glycoprotein 1

Antibody Fab EBOV-437 light chain

Virion spike glycoprotein 2

Antibody Fab EBOV-437 heavy chain

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