6ZJI | pdb_00006zji

Cryo-EM structure of wild-type KatG from M. tuberculosis

PDB DOI: https://doi.org/10.2210/pdb6ZJI/pdb
EM Map EMD-11234: EMDB EMDataResource

Classification: METAL BINDING PROTEIN
Organism(s): Mycobacterium tuberculosis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2020-06-29 Released: 2021-07-07
Deposition Author(s): Blundell, T.L., Chaplin, A.K., Munir, A.
Funding Organization(s): Bill & Melinda Gates Foundation

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.70 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history.

Literature

Cryo-EM as a tool to study KatG from Mycobacterium tuberculosis

Blundell, T.L., Chaplin, A.K., Munir, A.

To be published.

Macromolecule Content

Total Structure Weight: 162.61 kDa
Atom Count: 10,791
Modeled Residue Count: 1,397
Deposited Residue Count: 1,480
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Catalase-peroxidase	A [auth AP1], B [auth BP1]	740	Mycobacterium tuberculosis	Mutation(s): 0 Gene Names: katG, AYJ03_010035, ERS007661_00994, ERS013471_02729, ERS024276_01596, ERS075361_01376, ERS094182_01139, F6W99_00474, FRD82_12135 EC: 1.11.1.21
UniProt
Find proteins for P9WIE5 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WIE5 Go to UniProtKB: P9WIE5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P9WIE5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HEM (Subject of Investigation/LOI) Query on HEM Download:Ideal Coordinates CCD File SDF format, chain C [auth AP1] SDF format, chain D [auth BP1] MOL2 format, chain C [auth AP1] MOL2 format, chain D [auth BP1] mmCIF format, chain C [auth AP1] mmCIF format, chain D [auth BP1]	C [auth AP1], D [auth BP1]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain C [auth AP1] Focus chain D [auth BP1] Interactions & Density Focus chain C [auth AP1] Focus chain D [auth BP1]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.70 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2021-07-07

Deposition Author(s):

Funding Organization	Location	Grant Number
Bill & Melinda Gates Foundation	United Kingdom	RG 86546

Revision History (Full details and data files)

Version 1.0: 2021-07-07
Type: Initial release
Version 1.1: 2024-05-01
Changes: Data collection, Database references, Refinement description

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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.