SMTL ID : 8sic.2 (1 other biounit)

Crystal structure of Epstein-Barr virus glycoprotein 350 (gp350) in complex with Cy137C02, a monoclonal antibody isolated from macaques immunized with a gp350 nanoparticle vaccine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.76 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NAG.1: 2 residues within 4Å: Chain A: T.11, N.411 No protein-ligand interaction detected (PLIP) NAG.2: 3 residues within 4Å: Chain A: S.167, T.168, N.169 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.167, A:N.169 NAG.3: 4 residues within 4Å: Chain A: D.45, V.46, N.47, M.139 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:N.47 Hydrogen bonds: A:N.47 NAG.4: 4 residues within 4Å: Chain A: G.84, S.85, E.86, N.114 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:E.86 Hydrogen bonds: A:S.85 NAG.5: 5 residues within 4Å: Chain A: N.164, N.166, Y.297, C.298 Chain B: V.56 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.56 Hydrogen bonds: A:C.298 NAG.6: 3 residues within 4Å: Chain A: P.316, T.317, N.318 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.318 NAG.7: 4 residues within 4Å: Chain A: P.344, N.345, L.368, T.369 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.368 Hydrogen bonds: A:P.344, A:T.369 NAG.8: 5 residues within 4Å: Chain A: W.352, A.353, W.354, P.355, N.356 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.352, A:N.356 NAG.9: 4 residues within 4Å: Chain A: N.277, V.304, F.305, D.307 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.307, A:D.307

1 x ZN: ZINC ION(Non-covalent)

ZN.10: 2 residues within 4Å: Chain A: H.426, H.429 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.426, A:H.429

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joyce, M.G. et al., Crystal structure of Epstein-Barr virus glycoprotein 350 (gp350) in complex with Cy137C02, a monoclonal antibody isolated from macaques immunized with a gp350 nanoparticle vaccine. To Be Published

Release Date

2024-04-17

Peptides

Envelope glycoprotein gp350: A
Cy137C02 Fab heavy chain: B
Cy137C02 Fab light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
L

Envelope glycoprotein gp350

Cy137C02 Fab heavy chain

Cy137C02 Fab light chain

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