SMTL ID : 7t4r.1

CryoEM structure of the HCMV Pentamer gH/gL/UL128/UL130/UL131A in complex with THBD and neutralizing fabs MSL-109 and 13H11

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-2-2-2-2-2-2-2-2-mer

Ligands

14 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Post Translational Modification)

NAG.1: 1 residues within 4Å: Chain B: N.55 No protein-ligand interaction detected (PLIP) NAG.2: 2 residues within 4Å: Chain B: Y.61, N.62 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.62 NAG.3: 2 residues within 4Å: Chain B: R.50, N.67 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.50 NAG.4: 2 residues within 4Å: Chain B: H.190, N.192 No protein-ligand interaction detected (PLIP) NAG.5: 2 residues within 4Å: Chain B: N.700, T.702 No protein-ligand interaction detected (PLIP) NAG.6: 2 residues within 4Å: Chain C: N.74, T.76 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:T.76 Hydrogen bonds: C:N.74 NAG.7: 2 residues within 4Å: Chain E: N.201 Chain F: H.116 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.201 NAG.8: 1 residues within 4Å: Chain K: N.62 1 PLIP interactions: 1 interactions with chain K Hydrogen bonds: K:N.62 NAG.9: 1 residues within 4Å: Chain K: N.67 No protein-ligand interaction detected (PLIP) NAG.10: 3 residues within 4Å: Chain K: H.190, N.192, Q.193 No protein-ligand interaction detected (PLIP) NAG.11: 2 residues within 4Å: Chain K: N.700, T.702 1 PLIP interactions: 1 interactions with chain K Hydrophobic interactions: K:T.702 NAG.12: 1 residues within 4Å: Chain K: N.55 1 PLIP interactions: 1 interactions with chain K Hydrogen bonds: K:N.55 NAG.13: 1 residues within 4Å: Chain N: N.201 No protein-ligand interaction detected (PLIP) NAG.14: 3 residues within 4Å: Chain M: Y.130 Chain O: N.81, E.84 2 PLIP interactions: 2 interactions with chain M Hydrogen bonds: M:Y.130, M:Y.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kschonsak, M. et al., Structural basis for HCMV Pentamer receptor recognition and antibody neutralization. Sci Adv (2022)

Release Date

2022-03-23

Peptides

Thrombomodulin: A
Envelope glycoprotein H: BK
Envelope glycoprotein L: CL
Envelope protein UL128: DM
Envelope glycoprotein UL130: EN
Envelope protein UL131A: FO
Fab 13H11 heavy chain: GP
Fab 13H11 light chain: HQ
Fab MSL-109 light chain: IR
Fab MSL-109 heavy chain: JS

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

K
K

C
C

L
L

D
D

M
M

E
E

N
N

F
F

O
O

G
G

P
P

H
H

Q
Q

I
I

R
R

J
J

S
S

Thrombomodulin

Envelope glycoprotein H

Envelope glycoprotein L

Envelope protein UL128

Envelope glycoprotein UL130

Envelope protein UL131A

Fab 13H11 heavy chain

Fab 13H11 light chain

Fab MSL-109 light chain

Fab MSL-109 heavy chain

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