9MHA | pdb_00009mha

CryoEM Structure of Zaire Ebola Virus Envelope Glycoprotein GP

PDB DOI: https://doi.org/10.2210/pdb9MHA/pdb
EM Map EMD-48271: EMDB EMDataResource

Classification: VIRAL PROTEIN
Organism(s): Ebola virus - Mayinga, Zaire, 1976
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2024-12-11 Released: 2025-10-15
Deposition Author(s): Weidle, C., Borst, A.J.
Funding Organization(s): Defense Threat Reduction Agency (DTRA)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.05 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 9MHA

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

Literature

Towards a Pan-Ebola Virus Disease Nanoparticle Vaccine

Brunette, N., Weidle, C., Wrenn, S.P., Fiala, B., Ravichandran, R., Carr, K.D., Zak, S.E., Zumbrun, E.E., Murphy, M., Chan, S., Skotheim, R., Borst, A.J., Lauren, C., Correnti, C.E., Dye, J.M., Baker, D., King, N.P., Stewart, L.J.

To be published.

Macromolecule Content

Total Structure Weight: 164.95 kDa
Atom Count: 6,188
Modeled Residue Count: 810
Deposited Residue Count: 1,467
Unique protein chains: 2

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GP2	A [auth C], B [auth E], C [auth F]	168	Ebola virus - Mayinga, Zaire, 1976	Mutation(s): 0 Gene Names: GP
UniProt
Find proteins for Q05320 (Zaire ebolavirus (strain Mayinga-76)) Explore Q05320 Go to UniProtKB: Q05320
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q05320
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A [auth C] Focus chain B [auth E] Focus chain C [auth F]
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein,GP1	D [auth A], E [auth B], F [auth D]	321	Ebola virus - Mayinga, Zaire, 1976	Mutation(s): 0 Gene Names: GP
UniProt
Find proteins for Q05320 (Zaire ebolavirus (strain Mayinga-76)) Explore Q05320 Go to UniProtKB: Q05320
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q05320
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	G, H, I	3		N-Glycosylation	Interactions Focus chain G Focus chain H Focus chain I Interactions & Density Focus chain G Focus chain H Focus chain I
Glycosylation Resources
GlyTouCan: G15407YE GlyCosmos: G15407YE GlyGen: G15407YE

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.05 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC
MODEL REFINEMENT	PHENIX	1.21.1_5286
MODEL REFINEMENT	Coot
MODEL REFINEMENT	UCSF ChimeraX
MODEL REFINEMENT	ISOLDE

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-10-15

Deposition Author(s):

Funding Organization	Location	Grant Number
Defense Threat Reduction Agency (DTRA)	United States	HDTRA1-18-1-0001

Revision History (Full details and data files)

Version 1.0: 2025-10-15
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.