7CGP | pdb_00007cgp

Cryo-EM structure of the human mitochondrial translocase TIM22 complex at 3.7 angstrom.

• PDB DOI: https://doi.org/10.2210/pdb7CGP/pdb
• EM Map EMD-9958: EMDB EMDataResource

• Classification: TRANSLOCASE
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 
• Membrane Protein: Yes  OPMmpstruc


• Deposited: 2020-07-01 Released: 2020-10-14 
• Deposition Author(s): Qi, L., Wang, Q., Guan, Z., Yan, C., Yin, P.
• Funding Organization(s): Ministry of Science and Technology (MoST, China), National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

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

Literature

Cryo-EM structure of the human mitochondrial translocase TIM22 complex.

Qi, L., Wang, Q., Guan, Z., Wu, Y., Shen, C., Hong, S., Cao, J., Zhang, X., Yan, C., Yin, P.

(2021) Cell Res 31: 369-372

• PubMed: 32901109 
• DOI: https://doi.org/10.1038/s41422-020-00400-w
• Primary Citation Related Structures: 
  7CGP

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Organizational Affiliation: 
• National Key Laboratory of Crop Genetic Improvement and National Centre of Plant Gene Research, Huazhong Agricultural University, Wuhan, Hubei, 430070, China.
Public Laboratory of Electron Microscopy, Huazhong Agricultural University, Wuhan, Hubei, 430070, China.
Department of Biophysics, and Department of Pathology of Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, Center of Cryo Electron Microscopy, Zhejiang University, Hangzhou, Zhejiang, 310058, China.
Beijing Advanced Innovation Center for Structural Biology, Tsinghua-Peking Joint Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing, 100084, China. [e-mail].
National Key Laboratory of Crop Genetic Improvement and National Centre of Plant Gene Research, Huazhong Agricultural University, Wuhan, Hubei, 430070, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 15-mer - A6B5C1D1E1F1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 15-mer - A12B1C1D1 Local Symmetry: Cyclic - C3  (Explore in 3D)
Local Stoichiometry: Hetero 6-mer - A3B3 

Local Symmetry: Cyclic - C3  (Explore in 3D)
Local Stoichiometry: Hetero 6-mer - A3B3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: microscopy

Macromolecule Content 

• Total Structure Weight: 222.92 kDa 
• Atom Count: 12,433 
• Modeled Residue Count: 1,569 
• Deposited Residue Count: 1,964 
• Unique protein chains: 6

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial import inner membrane translocase subunit Tim22	A	194	Homo sapiens	Mutation(s): 0  Gene Names: TIMM22, TEX4, TIM22 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y584 (Homo sapiens) Explore Q9Y584  Go to UniProtKB:  Q9Y584
PHAROS:  Q9Y584 GTEx:  ENSG00000177370

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Acylglycerol kinase, mitochondrial	B	422	Homo sapiens	Mutation(s): 0  Gene Names: AGK, MULK EC: 2.7.1.107 (PDB Primary Data), 2.7.1.138 (PDB Primary Data), 2.7.1.94 (PDB Primary Data) Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q53H12 (Homo sapiens) Explore Q53H12  Go to UniProtKB:  Q53H12
PHAROS:  Q53H12 GTEx:  ENSG00000006530

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial import inner membrane translocase subunit Tim29	C	260	Homo sapiens	Mutation(s): 0  Gene Names: TIMM29, c19orf52 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BSF4 (Homo sapiens) Explore Q9BSF4  Go to UniProtKB:  Q9BSF4
PHAROS:  Q9BSF4 GTEx:  ENSG00000142444

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial import inner membrane translocase subunit Tim9	D, E, F, K, L	89	Homo sapiens	Mutation(s): 0  Gene Names: TIMM9, TIM9, TIM9A, TIMM9A Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y5J7 (Homo sapiens) Explore Q9Y5J7  Go to UniProtKB:  Q9Y5J7
PHAROS:  Q9Y5J7 GTEx:  ENSG00000100575

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial import inner membrane translocase subunit Tim10	G, H, I, M, N, O	90	Homo sapiens	Mutation(s): 0  Gene Names: TIMM10, TIM10 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P62072 (Homo sapiens) Explore P62072  Go to UniProtKB:  P62072
PHAROS:  P62072 GTEx:  ENSG00000134809

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial import inner membrane translocase subunit Tim10 B	J	103	Homo sapiens	Mutation(s): 0  Gene Names: TIMM10B, FXC1, TIM9B, TIMM9B Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y5J6 (Homo sapiens) Explore Q9Y5J6  Go to UniProtKB:  Q9Y5J6
PHAROS:  Q9Y5J6 GTEx:  ENSG00000132286

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEE (Subject of Investigation/LOI)	P [auth C]	1,2-dioleoyl-sn-glycero-3-phosphoethanolamine C41 H78 N O8 P MWRBNPKJOOWZPW-NYVOMTAGSA-N

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
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	RELION	3.0

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-10-14 
Deposition Author(s): Qi, L., Wang, Q., Guan, Z., Yan, C., Yin, P.

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Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, China)	China	2018YFA0507700
National Natural Science Foundation of China (NSFC)	China	31722017

Revision History  

• Version 1.0: 2020-10-14
  Type: Initial release
  
• Version 1.1: 2021-03-17
  Changes: Database references
• Version 2.0: 2025-04-09
  Changes: Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2025-06-18
  Changes: Data collection