SMTL ID : 9dvd.1

Cryo EM structure of Hendra G ectodomain in complex with Ephrin-B2 and Fab HENV-270

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.1: 6 residues within 4Å: Chain A: P.321, R.322, F.323, N.324, N.356 Ligands: BMA.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.322

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.2: 5 residues within 4Å: Chain A: D.187, K.242, N.244, S.246, L.247 No protein-ligand interaction detected (PLIP)

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

NAG.3: 4 residues within 4Å: Chain A: V.127, G.128, N.133, S.136 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.127, A:S.136 NAG.4: 2 residues within 4Å: Chain A: N.205, S.207 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.205, A:S.207 NAG.6: 3 residues within 4Å: Chain A: W.306, R.307, N.308 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.306, A:N.308 NAG.7: 1 residues within 4Å: Chain B: N.113 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.113

1 x BMA: beta-D-mannopyranose(Non-functional Binders)

BMA.5: 1 residues within 4Å: Ligands: NAG-FUC.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Binshtein, E. et al., Cryo EM structure of Hendra G ectodomain in complex with Ephrin-B2 and Fab HENV-270. To Be Published

Release Date

2025-10-15

Peptides

Glycoprotein: A
Ephrin-B2: B
Fan HENV-270 heavy chain: C
Fan HENV-270 light chain: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
H

D
L

Glycoprotein

Ephrin-B2

Fan HENV-270 heavy chain

Fan HENV-270 light chain