8F2O | pdb_00008f2o

Phi-29 expanded, DNA-packaged fiberless prohead

• PDB DOI: https://doi.org/10.2210/pdb8F2O/pdb
• EM Map EMD-28824: EMDB EMDataResource

• Classification: VIRUS
• Organism(s): Bacillus phage phi29
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-11-08 Released: 2023-11-15 
• Deposition Author(s): Woodson, M.E., Morais, M.C., Jardine, P.J., Zhang, W.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Phi29 assembly intermediates reveal how scaffold interactions with capsid protein drive capsid construction and maturation

Woodson, M., Prokhorov, N.S., Scott, S.D., Zhao, W., Zhang, W., Choi, K.H., Jardine, P.J., Morais, M.C.

(2025) Sci Adv 11

• DOI: https://doi.org/10.1126/sciadv.adk8779

Biological Assembly 1  

Global Symmetry: Cyclic - C5  (Explore in 3D)
Global Stoichiometry: Homo 235-mer - A235 

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

Macromolecule Content 

• Total Structure Weight: 2,345.06 kDa 
• Atom Count: 162,659 
• Modeled Residue Count: 20,645 
• Deposited Residue Count: 21,056 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major capsid protein	A, AA [auth a], B, BA [auth b], C, CA [auth c], D, DA [auth d], E, EA [auth e], F, FA [auth f], G, GA [auth g], H, HA [auth h], 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, W, X, Y, Z	448	Bacillus phage phi29	Mutation(s): 0
UniProt
Find proteins for P13849 (Bacillus phage phi29) Explore P13849  Go to UniProtKB:  P13849

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	3.0
MODEL REFINEMENT	PHENIX	1.19

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-11-15 
Deposition Author(s): Woodson, M.E., Morais, M.C., Jardine, P.J., Zhang, W.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM122979

Revision History  

• Version 1.0: 2023-11-15
  Type: Initial release
  
• Version 1.1: 2025-05-28
  Changes: Data collection, Database references, Structure summary