9LGJ | pdb_00009lgj

Cryo-EM structure of a designed AAV2-based vector

• PDB DOI: https://doi.org/10.2210/pdb9LGJ/pdb
• EM Map EMD-63067: EMDB EMDataResource

• Classification: VIRUS
• Organism(s): Adeno-associated virus 2 Srivastava/1982
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2025-01-10 Released: 2025-12-24 
• Deposition Author(s): Luo, S., Ke, X., Zheng, Q.
• Funding Organization(s): Other private

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.58 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of a designed AAV2-based vector

Luo, S., Ke, X., Zheng, Q.

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 and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 4,971.13 kDa 
• Atom Count: 249,660 
• Modeled Residue Count: 31,200 
• Deposited Residue Count: 44,580 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP1	A, AA [auth BA], AB [auth BB], B, BA [auth CA], BB [auth CB], C, CA [auth DA], CB [auth DB], D, DA [auth EA], DB [auth EB], E, EA [auth FA], EB [auth FB], F, FA [auth GA], FB [auth GB], G, GA [auth HA], GB [auth HB], H, HA [auth IA], HB [auth IB], I, IA [auth JA], J, JA [auth KA], K, KA [auth LA], L, LA [auth MA], M, MA [auth NA], N, NA [auth OA], O, OA [auth PA], P, PA [auth QA], Q, QA [auth RA], R, RA [auth SA], S, SA [auth TA], T, TA [auth UA], U [auth V], UA [auth VA], V [auth W], VA [auth WA], W [auth X], WA [auth XA], X [auth Y], XA [auth YA], Y [auth Z], YA [auth ZA], Z [auth AA], ZA [auth AB]	743	Adeno-associated virus 2 Srivastava/1982	Mutation(s): 2  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: 2.58 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-24 
Deposition Author(s): Luo, S., Ke, X., Zheng, Q.

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Funding Organization	Location	Grant Number
Other private		--

Revision History  

• Version 1.0: 2025-12-24
  Type: Initial release