9M4A | pdb_00009m4a

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

PDB DOI: https://doi.org/10.2210/pdb9M4A/pdb
EM Map EMD-63620: 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: 3.46 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

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

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

To be published.

Macromolecule Content

Total Structure Weight: 233.03 kDa
Atom Count: 15,813
Modeled Residue Count: 1,960
Deposited Residue Count: 2,051
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

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% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P09616
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.46 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

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

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.