9EFH | pdb_00009efh

The prefusion conformation of herpes simplex virus type 1 (HSV-1) glycoprotein B (gB) mutant R131F

PDB DOI: https://doi.org/10.2210/pdb9EFH/pdb
EM Map EMD-47973: EMDB EMDataResource

Classification: VIRAL PROTEIN
Organism(s): Human alphaherpesvirus 1 strain F
Expression System: Homo sapiens
Mutation(s): Yes

Deposited: 2024-11-20 Released: 2026-04-08
Deposition Author(s): Mou, Z., Wang, S., Dai, X.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9EFH

This is version 1.0 of the entry. See complete history.

Literature

The prefusion conformation of herpes simplex virus type 1 (HSV-1) glycoprotein B (gB) mutant R131F

Mou, Z., Wang, S., Dai, X.

To be published.

Macromolecule Content

Total Structure Weight: 300.86 kDa
Atom Count: 17,013
Modeled Residue Count: 2,133
Deposited Residue Count: 2,688
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein B	A, B, C	896	Human alphaherpesvirus 1 strain F	Mutation(s): 1 Gene Names: gB, UL27
UniProt
Find proteins for P06436 (Human herpesvirus 1 (strain F)) Explore P06436 Go to UniProtKB: P06436
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P06436
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A Focus chain B Focus chain C
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	D, E, F	2		N-Glycosylation	Interactions Focus chain D Focus chain E Focus chain F Interactions & Density Focus chain D Focus chain E Focus chain F
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	cryoSPARC

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-04-08

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35GM151043

Revision History (Full details and data files)

Version 1.0: 2026-04-08
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.