7YRN

Cyro-EM structure of HCMV glycoprotein B in complex with 1B03 Fab

• PDB DOI: https://doi.org/10.2210/pdb7YRN/pdb
• EM Map EMD-34063: EMDB EMDataResource

• Classification: VIRAL PROTEIN/IMMUNE SYSTEM
• Organism(s): Human betaherpesvirus 5, Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2022-08-10 Released: 2023-08-16 
• Deposition Author(s): Wang, H., Zhu, S., Liao, H.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.99 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cyro-EM structure of HCMV glycoprotein B in complex with 1B03 Fab

Wu, C., Wang, H., Zhu, S., Liao, H.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 9-mer - A3B3C3 Pseudo Symmetry: Cyclic - C3  (Explore in 3D)
Pseudo Stoichiometry: Hetero 9-mer - A6B3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: microscopy

Macromolecule Content

• Total Structure Weight: 395.32 kDa 
• Atom Count: 16,080 
• Modelled Residue Count: 1,977 
• Deposited Residue Count: 3,504 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein B	A, D [auth B], G [auth C]	731	Human betaherpesvirus 5	Mutation(s): 0  Gene Names: UL55, gB
UniProt
Find proteins for B9VXM4 (Human cytomegalovirus (strain Towne)) Explore B9VXM4  Go to UniProtKB:  B9VXM4

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
1B03 Fab antibody Heavy Chain	B [auth D], E [auth F], H	223	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
1B03 Fab antibody Light Chain	C [auth E], F [auth G], I	214	Homo sapiens	Mutation(s): 0

Oligosaccharides

Help

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	J, K, L	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG (Subject of Investigation/LOI)	M [auth A], N [auth A], O [auth B], P [auth B], Q [auth C], R [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.99 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-08-16 
Deposition Author(s): Wang, H., Zhu, S., Liao, H.

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Funding Organization	Location	Grant Number
Other government	China	--

Revision History  

• Version 1.0: 2023-08-16
  Type: Initial release