9NPS | pdb_00009nps

Ravn marburgvirus glycoprotein

• PDB DOI: https://doi.org/10.2210/pdb9NPS/pdb
• EM Map EMD-49631: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Ravn virus - Ravn, Kenya, 1987
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2025-03-11 Released: 2025-12-31 
• Deposition Author(s): Ye, G., Bu, F., Liu, B., Li, F.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.17 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis of receptor recognition and nanobody neutralization of marburgvirus

Ye, G., Bu, F., Liu, B., Li, F.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 12-mer - A6B6 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 347.72 kDa 
• Atom Count: 12,491 
• Modeled Residue Count: 1,511 
• Deposited Residue Count: 3,012 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein RAVV GP1	A [auth K], C [auth G], E [auth I], G [auth E], I [auth C], K [auth A]	256	Ravn virus - Ravn, Kenya, 1987	Mutation(s): 0  Gene Names: GP
UniProt
Find proteins for Q1PDC7 (Lake Victoria marburgvirus (strain Ravn-87)) Explore Q1PDC7  Go to UniProtKB:  Q1PDC7
Glycosylation
Glycosylation Sites: 1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein RAVV GP2	B [auth L], D [auth H], F [auth J], H [auth F], J [auth D], L [auth B]	246	Ravn virus - Ravn, Kenya, 1987	Mutation(s): 0  Gene Names: GP
UniProt
Find proteins for Q1PDC7 (Lake Victoria marburgvirus (strain Ravn-87)) Explore Q1PDC7  Go to UniProtKB:  Q1PDC7
Glycosylation
Glycosylation Sites: 1

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	M [auth O], N [auth P], O [auth Q], P [auth R], Q [auth S], R [auth T]	3		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE GlyCosmos:  G15407YE GlyGen:  G15407YE

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	S [auth U], T [auth V], U [auth W], V [auth X], W [auth Y], X [auth Z]	5		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G22768VO GlyCosmos:  G22768VO GlyGen:  G22768VO

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.17 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.1_5286:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-31 
Deposition Author(s): Ye, G., Bu, F., Liu, B., Li, F.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI089728
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI171954

Revision History  

• Version 1.0: 2025-12-31
  Type: Initial release