9DW1 | pdb_00009dw1

Human mitochondrial ClpP protease

• PDB DOI: https://doi.org/10.2210/pdb9DW1/pdb
• EM Map EMD-47233: EMDB EMDataResource

• Classification: STRUCTURAL PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-10-08 Released: 2025-10-15 
• Deposition Author(s): Chen, W.C.
• Funding Organization(s): National Science Foundation (NSF, United States), National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.40 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico

Literature

Assembly and proteolytic activation human ClpXP defined by cryo-EM

Chen, W.C.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C7  (Explore in 3D)
Global Stoichiometry: Homo 7-mer - A7 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 168.65 kDa 
• Atom Count: 9,090 
• Modeled Residue Count: 1,164 
• Deposited Residue Count: 1,540 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ATP-dependent Clp protease proteolytic subunit, mitochondrial	A [auth H], B [auth I], C [auth J], D [auth K], E [auth L], F [auth M], G [auth N]	220	Homo sapiens	Mutation(s): 0  Gene Names: CLPP EC: 3.4.21.92
UniProt & NIH Common Fund Data Resources
Find proteins for Q16740 (Homo sapiens) Explore Q16740  Go to UniProtKB:  Q16740
PHAROS:  Q16740 GTEx:  ENSG00000125656

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.40 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21_5207

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-10-15 
Deposition Author(s): Chen, W.C.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	--
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)	United States	NS095892
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	S10OD032467

Revision History  

• Version 1.0: 2025-10-15
  Type: Initial release