9MT2 | pdb_00009mt2

Structure of the Machupo virus glycoprotein complex

  • Classification: VIRAL PROTEIN
  • Organism(s): Mammarenavirus machupoense
  • Expression System: Homo sapiens
  • Mutation(s): Yes 

  • Deposited: 2025-01-10 Released: 2025-07-16 
  • Deposition Author(s): Mann, C.J., Abraham, J.
  • Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), Howard Hughes Medical Institute (HHMI)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


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


Literature

Structure of the Machupo virus glycoprotein complex

Mann, C.J., Abraham, J.

To be published.

Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Pre-glycoprotein polyprotein GP complex
A, D, G
58Mammarenavirus machupoenseMutation(s): 1 
Gene Names: GPC
UniProt
Find proteins for Q6IUF7 (Machupo virus)
Explore Q6IUF7 
Go to UniProtKB:  Q6IUF7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6IUF7
Sequence Annotations
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  • Reference Sequence
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(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Pre-glycoprotein polyprotein GP complex
B, E, H
204Mammarenavirus machupoenseMutation(s): 0 
Gene Names: GPC
UniProt
Find proteins for Q8AZ57 (Machupo virus)
Explore Q8AZ57 
Go to UniProtKB:  Q8AZ57
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8AZ57
Glycosylation
Glycosylation Sites: 3
Sequence Annotations
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  • Reference Sequence
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(by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Pre-glycoprotein polyprotein GP complex
C, F, I
234Mammarenavirus machupoenseMutation(s): 0 
Gene Names: GPC
UniProt
Find proteins for Q6IUF7 (Machupo virus)
Explore Q6IUF7 
Go to UniProtKB:  Q6IUF7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6IUF7
Glycosylation
Glycosylation Sites: 4
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 4
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
J [auth V],
K [auth T],
L [auth S],
N [auth K],
P [auth M],
J [auth V],
K [auth T],
L [auth S],
N [auth K],
P [auth M],
R [auth O]
3N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE
GlyCosmos:  G15407YE
GlyGen:  G15407YE
Entity ID: 5
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseM [auth J],
O [auth L],
Q [auth N]		2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG (Subject of Investigation/LOI)
Query on NAG
Download Ideal Coordinates CCD File 
AA [auth F]
BA [auth F]
EA [auth H]
FA [auth H]
GA [auth I]
AA [auth F],
BA [auth F],
EA [auth H],
FA [auth H],
GA [auth I],
HA [auth I],
S [auth B],
T [auth B],
U [auth C],
V [auth C],
Y [auth E],
Z [auth E]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
ZN (Subject of Investigation/LOI)
Query on ZN
Download Ideal Coordinates CCD File 
CA [auth F]
DA [auth F]
IA [auth I]
JA [auth I]
W [auth C]
CA [auth F],
DA [auth F],
IA [auth I],
JA [auth I],
W [auth C],
X [auth C]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.1_5286:

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesDP5OD023084
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesT32AI700245
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesT32GM144273
Howard Hughes Medical Institute (HHMI)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2025-07-16
    Type: Initial release