8FZ0

Cryo-EM Structure of empty AAV2 capsid

• PDB DOI: https://doi.org/10.2210/pdb8FZ0/pdb
• EM Map EMD-29600: EMDB EMDataResource

• Classification: VIRUS
• Organism(s): adeno-associated virus 2
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2023-01-27 Released: 2023-05-31 
• Deposition Author(s): Bennett, A.D., McKenna, R.
• Funding Organization(s): National Science Foundation (NSF, United States), National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.94 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM Structure of genome containing AAV2

Bennett, A.D., Mckenna, R.

To be published.

Biological Assembly 1  

Global Symmetry: Icosahedral - I  (Explore in 3D)
Global Stoichiometry: Homo 60-mer - A60 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 4,921.88 kDa 
• Atom Count: 250,080 
• Modelled Residue Count: 31,140 
• Deposited Residue Count: 44,100 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP1	A, AA [auth a], AB [auth 1], B, BA [auth b], BB [auth 2], C, CA [auth c], CB [auth 3], D, DA [auth d], DB [auth 4], E, EA [auth e], EB [auth 5], F, FA [auth f], FB [auth 6], G, GA [auth g], GB [auth 7], H, HA [auth h], HB [auth 8], I, IA [auth i], J, JA [auth j], K, KA [auth k], L, LA [auth l], M, MA [auth m], N, NA [auth n], O, OA [auth o], P, PA [auth p], Q, QA [auth q], R, RA [auth r], S, SA [auth s], T, TA [auth t], U, UA [auth u], V, VA [auth v], W, WA [auth w], X, XA [auth x], Y, YA [auth y], Z, ZA [auth z]	735	adeno-associated virus 2	Mutation(s): 0  Gene Names: VP1
UniProt
Find proteins for P03135 (Adeno-associated virus 2 (isolate Srivastava/1982)) Explore P03135  Go to UniProtKB:  P03135

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.94 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	cisTEM

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-05-31 
Deposition Author(s): Bennett, A.D., McKenna, R.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	DMS 1563234
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	GM082946

Revision History  

• Version 1.0: 2023-05-31
  Type: Initial release
  
• Version 1.1: 2024-06-19
  Changes: Data collection