9Y8P | pdb_00009y8p

Cryo-EM structure of Thermotoga maritima encapsulin shell

• PDB DOI: https://doi.org/10.2210/pdb9Y8P/pdb
• EM Map EMD-72682: EMDB EMDataResource

• Classification: VIRUS LIKE PARTICLE
• Organism(s): Thermotoga maritima
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-09-11 Released: 2025-09-24 
• Deposition Author(s): Torres, V.J., Vera, C.S., Cisneros, Y.W., Portugal, R.V., Guerra, D.G., Evangelista, W.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of Thermotoga maritima encapsulin shell

Torres, V.J., Vera, C.S., Cisneros, Y.W., Portugal, R.V., Guerra, D.G., Evangelista, W.

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: 1,831.01 kDa 
• Atom Count: 129,180 
• Modeled Residue Count: 15,900 
• Deposited Residue Count: 15,900 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Type 1 encapsulin shell protein	A [auth U], AA, AB, B [auth A], BA, BB, C [auth B], CA, CB, D [auth C], DA, DB, E [auth D], EA, EB, F [auth E], FA, FB, G [auth F], GA, GB, H [auth G], HA, HB, I [auth H], IA, J [auth I], JA, K [auth J], KA, L [auth K], LA, M [auth L], MA, N [auth M], NA, O [auth N], OA, P [auth O], PA, Q [auth P], QA, R [auth Q], RA, S [auth R], SA, T [auth S], TA, U [auth T], UA, V, VA, W, WA, X, XA, Y, YA, Z, ZA	265	Thermotoga maritima	Mutation(s): 0  Gene Names: enc, TM_0785 EC: 3.4
UniProt
Find proteins for Q9WZP2 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)) Explore Q9WZP2  Go to UniProtKB:  Q9WZP2

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2025-09-24 
Deposition Author(s): Torres, V.J., Vera, C.S., Cisneros, Y.W., Portugal, R.V., Guerra, D.G., Evangelista, W.

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Funding Organization	Location	Grant Number
Other government	Peru	PROCIENCIA PE501080175-2022
Other government	Peru	PROCIENCIA PE501089887-2024-PROCIENCIA

Revision History  

• Version 1.0: 2025-09-24
  Type: Initial release