9M4P | pdb_00009m4p

Cryo-EM structure of alpha-hemolysin heptameric pore state in the presence of RBC

PDB DOI: https://doi.org/10.2210/pdb9M4P/pdb
EM Map EMD-63626: EMDB EMDataResource

Classification: TOXIN
Organism(s): Staphylococcus aureus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-03-04 Released: 2025-11-26
Deposition Author(s): Chatterjee, A., Roy, A., Dutta, S.
Funding Organization(s): Department of Biotechnology (DBT, India)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.10 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9M4P

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

Literature

Cryo-EM structure of alpha-hemolysin heptameric pore state in the presence of RBC

Chatterjee, A., Roy, A., Dutta, S.

To be published.

Macromolecule Content

Total Structure Weight: 233.03 kDa
Atom Count: 16,415
Modeled Residue Count: 2,051
Deposited Residue Count: 2,051
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-hemolysin	A [auth G] B [auth A] C [auth B] D [auth C] E [auth D] A [auth G], B [auth A], C [auth B], D [auth C], E [auth D], F [auth E], G [auth F]	293	Staphylococcus aureus	Mutation(s): 0 Gene Names: hly, hla
UniProt
Find proteins for P09616 (Staphylococcus aureus) Explore P09616 Go to UniProtKB: P09616
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P09616
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.10 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-11-26

Deposition Author(s):

Funding Organization	Location	Grant Number
Department of Biotechnology (DBT, India)	India	--

Revision History (Full details and data files)

Version 1.0: 2025-11-26
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.