SMTL ID : 7czf.1 (1 other biounit)

Crystal structure of Kaposi Sarcoma associated herpesvirus (KSHV ) gHgL in complex with the ligand binding domian (LBD) of EphA2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-1-1-1-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: 5 residues within 4Å: Chain A: P.82 Chain B: N.33, G.34, T.35 Chain C: Y.89 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.82

2 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: 2 residues within 4Å: Chain B: N.104, F.311 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 6 residues within 4Å: Chain B: V.83, I.85, N.246, T.248, R.249, L.252 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.83, B:I.85

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

NAG.4: 2 residues within 4Å: Chain B: T.24, N.25 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.24 NAG.5: 5 residues within 4Å: Chain B: N.188, T.196, D.237, S.238, Y.239 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.188, B:T.196, B:S.238 NAG.6: 4 residues within 4Å: Chain B: N.253, E.256, S.257, T.265 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:E.256 Hydrogen bonds: B:S.257 NAG.7: 2 residues within 4Å: Chain B: N.344, T.346 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.344 NAG.8: 3 residues within 4Å: Chain B: P.614, W.663, N.667 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.667 NAG.9: 3 residues within 4Å: Chain C: G.100, N.102, T.104 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Su, C. et al., Molecular basis of EphA2 recognition by gHgL from gammaherpesviruses. Nat Commun (2020)

Release Date

2020-10-21

Peptides

Ephrin type-A receptor 2: A
Envelope glycoprotein H: B
Envelope glycoprotein L: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Ephrin type-A receptor 2

Envelope glycoprotein H

Envelope glycoprotein L

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