SMTL ID : 7kdd.1

HCMV postfusion gB in complex with SM5-1 Fab

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: N.281, T.283, N.284 Ligand excluded by PLIP NAG.2: 1 residues within 4Å: Chain A: N.286 Ligand excluded by PLIP NAG.3: 1 residues within 4Å: Chain A: N.302 Ligand excluded by PLIP NAG.4: 1 residues within 4Å: Chain A: N.341 Ligand excluded by PLIP NAG.5: 6 residues within 4Å: Chain A: N.383, S.385 Chain B: N.52, S.55, G.57, L.112 Ligand excluded by PLIP NAG.6: 1 residues within 4Å: Chain A: N.405 Ligand excluded by PLIP NAG.7: 4 residues within 4Å: Chain A: N.409, T.411 Chain I: D.61, T.77 Ligand excluded by PLIP NAG.8: 1 residues within 4Å: Chain A: N.417 Ligand excluded by PLIP NAG.9: 4 residues within 4Å: Chain A: N.555, T.557, N.586, S.587 Ligand excluded by PLIP NAG.10: 1 residues within 4Å: Chain A: N.586 Ligand excluded by PLIP NAG.12: 4 residues within 4Å: Chain D: N.281, T.283, N.284, D.338 Ligand excluded by PLIP NAG.13: 1 residues within 4Å: Chain D: N.286 Ligand excluded by PLIP NAG.14: 1 residues within 4Å: Chain D: N.302 Ligand excluded by PLIP NAG.15: 1 residues within 4Å: Chain D: N.341 Ligand excluded by PLIP NAG.16: 6 residues within 4Å: Chain D: N.383, S.385 Chain E: N.52, S.55, G.57, L.112 Ligand excluded by PLIP NAG.17: 1 residues within 4Å: Chain D: N.405 Ligand excluded by PLIP NAG.18: 4 residues within 4Å: Chain C: D.61, T.77 Chain D: N.409, T.411 Ligand excluded by PLIP NAG.19: 1 residues within 4Å: Chain D: N.417 Ligand excluded by PLIP NAG.20: 4 residues within 4Å: Chain D: N.555, T.557, N.586, S.587 Ligand excluded by PLIP NAG.21: 1 residues within 4Å: Chain D: N.586 Ligand excluded by PLIP NAG.22: 2 residues within 4Å: Chain G: N.281, N.284 Ligand excluded by PLIP NAG.23: 1 residues within 4Å: Chain G: N.286 Ligand excluded by PLIP NAG.24: 1 residues within 4Å: Chain G: N.302 Ligand excluded by PLIP NAG.25: 1 residues within 4Å: Chain G: N.341 Ligand excluded by PLIP NAG.26: 6 residues within 4Å: Chain G: N.383, S.385 Chain H: N.52, S.55, G.57, L.112 Ligand excluded by PLIP NAG.27: 1 residues within 4Å: Chain G: N.405 Ligand excluded by PLIP NAG.28: 4 residues within 4Å: Chain F: D.61, T.77 Chain G: N.409, T.411 Ligand excluded by PLIP NAG.29: 1 residues within 4Å: Chain G: N.417 Ligand excluded by PLIP NAG.30: 4 residues within 4Å: Chain G: N.555, T.557, N.586, S.587 Ligand excluded by PLIP NAG.31: 1 residues within 4Å: Chain G: N.586 Ligand excluded by PLIP

1 x CA: CALCIUM ION(Non-covalent)

CA.11: 3 residues within 4Å: Chain A: D.509 Chain D: D.509 Chain G: D.509 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D, 1 interactions with chain G Metal complexes: A:D.509, D:D.509, G:D.509

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Y. et al., Prefusion structure of human cytomegalovirus glycoprotein B and structural basis for membrane fusion. Sci Adv (2021)

Release Date

2021-03-17

Peptides

Envelope glycoprotein B: ADG
SM5-1 Fab antibody heavy chain: BEH
SM5-1 Fab antibody light chain: CFI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
B

G
C

B
D

E
F

H
H

C
E

F
G

I
I

Envelope glycoprotein B

SM5-1 Fab antibody heavy chain

SM5-1 Fab antibody light chain

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