SMTL ID : 5vob.1

Crystal structure of HCMV Pentamer in complex with neutralizing antibody 8I21

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.02 Å

Oligo State

hetero-1-1-1-1-1-1-1-mer

Ligands

1 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: 4 residues within 4Å: Chain C: Y.130 Chain E: Y.52, N.81, E.84 No protein-ligand interaction detected (PLIP)

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

NAG.2: 6 residues within 4Å: Chain A: N.641, I.642, S.643, F.649, L.704 Ligands: NAG.5 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.649, A:L.704 Hydrogen bonds: A:S.643 NAG.3: 1 residues within 4Å: Chain A: N.67 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.67 NAG.4: 3 residues within 4Å: Chain A: N.192, Q.193, T.392 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Q.193 Hydrogen bonds: A:N.192, A:Q.193, A:T.392 NAG.5: 6 residues within 4Å: Chain A: A.648, F.649, L.698, N.700, T.702 Ligands: NAG.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.702 Hydrogen bonds: A:T.702, A:T.702 NAG.6: 2 residues within 4Å: Chain A: N.55 Chain B: E.66 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.53 NAG.7: 3 residues within 4Å: Chain A: Y.61, N.62 Chain B: L.56 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.61 Hydrogen bonds: A:N.62 NAG.8: 1 residues within 4Å: Chain B: N.74 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.74 NAG.9: 5 residues within 4Å: Chain D: S.72, L.114, N.118 Chain F: F.122 Chain G: I.51 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:L.114 Hydrogen bonds: D:S.72, D:N.118 NAG.10: 2 residues within 4Å: Chain D: N.201 Chain E: H.116 No protein-ligand interaction detected (PLIP) NAG.11: 2 residues within 4Å: Chain D: R.84, N.85 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chandramouli, S. et al., Structural basis for potent antibody-mediated neutralization of human cytomegalovirus. Sci Immunol (2017)

Release Date

2017-07-05

Peptides

Envelope glycoprotein H: A
Envelope glycoprotein L: B
Envelope glycoprotein UL128: C
Envelope glycoprotein UL130: D
Envelope glycoprotein UL131A: E
Fab 8I21 heavy chain: F
Fab 8I21 light chain: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
H

G
L

Envelope glycoprotein H

Envelope glycoprotein L

Envelope glycoprotein UL128

Envelope glycoprotein UL130

Envelope glycoprotein UL131A

Fab 8I21 heavy chain

Fab 8I21 light chain

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