SMTL ID : 3csy.1 (1 other biounit)

Crystal structure of the trimeric prefusion Ebola virus glycoprotein in complex with a neutralizing antibody from a human survivor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.40 Å

Oligo State

hetero-3-3-3-3-mer

Ligands

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

NAG-NAG-BMA.1: 3 residues within 4Å: Chain G: L.239, N.242, Y.246 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.5: 3 residues within 4Å: Chain K: L.239, N.242, Y.246 No protein-ligand interaction detected (PLIP)

2 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 G: L.55, E.141, G.142, A.143, V.165 Chain H: Q.7, N.62, T.65 Chain J: L.28, F.34 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:E.141 NAG-NAG-BMA-MAN-MAN.6: 11 residues within 4Å: Chain H: L.28, F.34 Chain K: L.55, E.141, G.142, A.143, V.165 Chain L: Q.7, P.8, N.62, T.65 No protein-ligand interaction detected (PLIP)

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

NAG-NAG.3: 3 residues within 4Å: Chain I: L.239, N.242, Y.246 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- NAG- MAN: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-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-NAG-MAN.4: 10 residues within 4Å: Chain I: L.55, E.141, A.143, V.165 Chain J: Q.7, P.8, N.62, T.65 Chain L: L.28, F.34 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, J.E. et al., Structure of the Ebola virus glycoprotein bound to an antibody from a human survivor. Nature (2008)

Release Date

2008-07-08

Peptides

Fab KZ52 heavy chain: ACE
Fab KZ52 light chain: BDF
Envelope glycoprotein GP1: GIK
Envelope glycoprotein GP2: HJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

G
I

I
K

K
M

H
J

J
L

L
N

Fab KZ52 heavy chain

Fab KZ52 light chain

Envelope glycoprotein GP1

Envelope glycoprotein GP2

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