SMTL ID : 6ea7.1

Structure of EBOV GPcl in complex with the pan-ebolavirus mAb ADI-15878

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 4.25 Å

Oligo State

hetero-3-3-3-3-mer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 3 residues within 4Å: Chain A: N.9, S.10, K.159 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG- BMA- MAN- NAG- GAL- MAN- NAG: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-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-NAG-GAL-MAN-NAG.2: 14 residues within 4Å: Chain A: K.53, K.124, E.125, V.149 Chain B: N.62, T.65 Chain F: W.30 Chain G: R.101, W.103 Chain H: S.31, W.32, D.50, S.52, S.53 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain H Hydrogen bonds: A:K.124, A:K.124, H:S.31, H:S.53, H:D.50 NAG-NAG-BMA-MAN-NAG-GAL-MAN-NAG.3: 11 residues within 4Å: Chain B: W.30 Chain C: K.124, E.125, V.149 Chain D: N.62 Chain I: H.100, R.101, W.103 Chain J: S.31, D.50, S.52 6 PLIP interactions: 3 interactions with chain J, 1 interactions with chain I, 2 interactions with chain C Hydrogen bonds: J:S.52, J:S.52, J:S.52, I:R.101, I:R.101, C:K.124, C:K.124

1 x NAG- NAG- BMA- MAN- NAG- MAN- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-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-NAG-MAN-NAG.4: 10 residues within 4Å: Chain E: L.39, E.125, V.149 Chain F: N.62, T.65 Chain K: R.101, W.103 Chain L: S.31, W.32, S.52 2 PLIP interactions: 2 interactions with chain K Hydrogen bonds: K:R.101, K:R.101

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

NAG.5: 1 residues within 4Å: Chain C: N.9 No protein-ligand interaction detected (PLIP) NAG.6: 1 residues within 4Å: Chain E: N.9 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

West, B.R. et al., Structural Basis of Pan-Ebolavirus Neutralization by a Human Antibody against a Conserved, yet Cryptic Epitope. MBio (2018)

Release Date

2018-09-19

Peptides

Envelope glycoprotein: ACE
Envelope glycoprotein: BDF
ADI-15878 Fab Heavy Chain: GIK
ADI-15878 Fab Light Chain: HJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

G
H

I
M

K
Q

H
L

J
N

L
R

Envelope glycoprotein

Envelope glycoprotein

ADI-15878 Fab Heavy Chain

ADI-15878 Fab Light Chain

Related Entries With Identical Sequence