SMTL ID : 5voc.1

Crystal structure of HCMV Pentamer in complex with neutralizing antibody 8I21 - Low resolution dataset for initial phasing by SAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.99 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 A: Y.130 Chain C: Y.52, N.81, E.84 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Y.52, C:Y.52

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

NAG.2: 6 residues within 4Å: Chain B: F.71, S.72, R.94, L.114, R.117, N.118 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.114, B:R.117 NAG.3: 2 residues within 4Å: Chain B: N.201 Chain C: H.116 No protein-ligand interaction detected (PLIP) NAG.4: 3 residues within 4Å: Chain F: N.192, Q.193, T.392 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:N.192, F:Q.193, F:Q.193 NAG.5: 6 residues within 4Å: Chain F: A.639, N.641, I.642, S.643, L.704 Ligands: NAG.6 6 PLIP interactions: 6 interactions with chain F Hydrophobic interactions: F:A.639, F:L.704 Hydrogen bonds: F:N.641, F:S.643, F:S.643, F:S.643 NAG.6: 6 residues within 4Å: Chain F: A.648, F.649, L.698, N.700, T.702 Ligands: NAG.5 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:T.702 Hydrogen bonds: F:T.702, F:T.702

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
E

D
H

E
L

F
A

G
B

Envelope glycoprotein UL128

Envelope glycoprotein UL130

Envelope glycoprotein UL131A

Fab 8I21 heavy chain

Fab 8I21 light chain

Envelope glycoprotein H

Envelope glycoprotein L

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