9RRS | pdb_00009rrs

AAV8 capsid in complex with Rep40 and ADP

• PDB DOI: https://doi.org/10.2210/pdb9RRS/pdb
• EM Map EMD-54195: EMDB EMDataResource

• Classification: VIRUS
• Organism(s): adeno-associated virus 2, adeno-associated virus 8
• Expression System: Escherichia coli, Homo sapiens
• Mutation(s): No 


• Deposited: 2025-06-28 Released: 2026-02-04 
• Deposition Author(s): Rouse, S.L., Bubeck, D., Barritt, J.D., Xu, V., Wake, M.
• Funding Organization(s): Other government, Other private

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 1.88 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Dynamic oligomerisation states of replicative helicase 40 coordinate during adeno-associated virus packaging

Xu, V., Barritt, J.D., Bubeck, D., Wake, M., Rouse, S.L.

To be published.

Biological Assembly 1  

Global Symmetry: Icosahedral - I  (Explore in 3D)
Global Stoichiometry: Hetero 120-mer - A60B60 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 126.43 kDa 
• Atom Count: 4,612 
• Modeled Residue Count: 548 
• Deposited Residue Count: 1,135 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein Rep40	A	397	adeno-associated virus 2	Mutation(s): 0  Gene Names: Rep40 EC: 3.6.4.12
UniProt
Find proteins for Q89269 (Adeno-associated virus 2 (isolate Srivastava/1982)) Explore Q89269  Go to UniProtKB:  Q89269

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein	B	738	adeno-associated virus 8	Mutation(s): 0
UniProt
Find proteins for Q8JQF8 (Adeno-associated virus 8) Explore Q8JQF8  Go to UniProtKB:  Q8JQF8

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP (Subject of Investigation/LOI)	C [auth B]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG (Subject of Investigation/LOI)	D [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 1.88 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	cryoSPARC	4.4.1

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-02-04 
Deposition Author(s): Rouse, S.L., Bubeck, D., Barritt, J.D., Xu, V., Wake, M.

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Funding Organization	Location	Grant Number
Other government		--
Other private		--

Revision History  

• Version 1.0: 2026-02-04
  Type: Initial release