9FY6 | pdb_00009fy6

Single particle cryo-EM reconstruction of Bacillus Methanolicus encapsulin nano compartment

PDB DOI: https://doi.org/10.2210/pdb9FY6/pdb
EM Map EMD-50859: EMDB EMDataResource

Classification: STRUCTURAL PROTEIN
Organism(s): Bacillus methanolicus MGA3
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-07-02 Released: 2025-06-11
Deposition Author(s): Marles-Wright, J., McIver, Z., Basle, A., Ross, J.
Funding Organization(s): Biotechnology and Biological Sciences Research Council (BBSRC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.82 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9FY6

This is version 1.0 of the entry. See complete history.

Literature

Cryo-EM structure of Bacillus methanolicus encapsulin nano compartment

Marles-Wright, J., McIver, Z., Basle, A., Ross, J.

To be published.

Macromolecule Content

Total Structure Weight: 128.2 kDa
Atom Count: 8,506
Modeled Residue Count: 1,059
Deposited Residue Count: 1,128
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bacteriocin	A, B, C, D	282	Bacillus methanolicus MGA3	Mutation(s): 0 Gene Names: BMMGA3_02020
UniProt
Find proteins for I3E3I1 (Bacillus methanolicus (strain MGA3 / ATCC 53907)) Explore I3E3I1 Go to UniProtKB: I3E3I1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	I3E3I1
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.82 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.1_5286

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-06-11

Deposition Author(s):

Marles-Wright, J.

Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	2306768
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/N005570/1
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	1801041

Revision History (Full details and data files)

Version 1.0: 2025-06-11
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.