13AJ | pdb_000013aj

Structure of the HPII Catalase from Escherichia coli

PDB DOI: https://doi.org/10.2210/pdb13AJ/pdb
EM Map EMD-76915: EMDB EMDataResource

Classification: OXIDOREDUCTASE
Organism(s): Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2026-04-27 Released: 2026-09-02
Deposition Author(s): Iarocci, J., Song, M., Guo, S.
Funding Organization(s): Fonds de Recherche du Quebec - Sante (FRQS), Natural Sciences and Engineering Research Council (NSERC, Canada)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.18 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 13AJ

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

Literature

Adhesin-mediated co-purification of Escherichia coli HPII (KatE) Catalase revealed its cryo-EM structure

Iarocci, J., Song, M., Nadeau, J., Wang, M., Hancock, M., Bui, K.H., Guo, S.

To be published.

Macromolecule Content

Total Structure Weight: 320.99 kDa
Atom Count: 22,412
Modeled Residue Count: 2,808
Deposited Residue Count: 2,836
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Catalase	A [auth E], B [auth F], C [auth G], D [auth H]	709	Escherichia coli 'BL21-Gold(DE3)pLysS AG	Mutation(s): 0 EC: 1.11.1.6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HDD (Subject of Investigation/LOI) Query on HDD Download:Ideal Coordinates CCD File SDF format, chain E SDF format, chain F SDF format, chain G SDF format, chain H MOL2 format, chain E MOL2 format, chain F MOL2 format, chain G MOL2 format, chain H mmCIF format, chain E mmCIF format, chain F mmCIF format, chain G mmCIF format, chain H	E, F, G, H	CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE C₃₄ H₃₂ Fe N₄ O₅ HMYRFFHHXXPRDI-XCVPDAMTSA-M		Interactions Focus chain E Focus chain F Focus chain G Focus chain H Interactions & Density Focus chain E Focus chain F Focus chain G Focus chain H

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
OCS Query on OCS	A [auth E], B [auth F], C [auth G], D [auth H]	L-PEPTIDE LINKING	C₃ H₇ N O₅ S		CYS

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.18 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-09-02

Deposition Author(s):

Funding Organization	Location	Grant Number
Fonds de Recherche du Quebec - Sante (FRQS)	Canada	359456 & 376506
Natural Sciences and Engineering Research Council (NSERC, Canada)	Canada	RGPIN-2024-04631

Revision History (Full details and data files)

Version 1.0: 2026-09-02
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.