Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Predict Membrane 

Global Symmetry: Cyclic - C4  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 670.43 kDa 
• Atom Count: 26262 
• Modelled Residue Count: 4144 
• Deposited Residue Count: 5864 
• Unique protein chains: 1

6PKW

Cryo-EM structure of the zebrafish TRPM2 channel in the apo conformation, processed with C2 symmetry (pseudo C4 symmetry)

• PDB DOI: 10.2210/pdb6PKW/pdb
• EM Map EMD-20368:EMDBEMDataResource

• Classification: TRANSPORT PROTEIN
• Organism(s): Danio rerio
• Expression System: Homo sapiens
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMmpstruc


• Deposited: 2019-06-30 Released: 2019-08-28 
• Deposition Author(s): Yin, Y., Wu, M., Hsu, A.L., Borschel, W.F., Borgnia, M.J., Lander, G.C., Lee, S.-Y.
• Funding Organization(s): National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.50 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Visualizing structural transitions of ligand-dependent gating of the TRPM2 channel.

Yin, Y., Wu, M., Hsu, A.L., Borschel, W.F., Borgnia, M.J., Lander, G.C., Lee, S.Y.

(2019) Nat Commun 10: 3740-3740

• PubMed: 31431622 
• DOI: 10.1038/s41467-019-11733-5
• Primary Citation of Related Structures:  
  6D73, 6PKV, 6PKW, 6PKX


• PubMed Abstract: 
  

The transient receptor potential melastatin 2 (TRPM2) channel plays a key role in redox sensation in many cell types. Channel activation requires binding of both ADP-ribose (ADPR) and Ca ²⁺ . The recently published TRPM2 structures from Danio rerio in the ligand-free and the ADPR/Ca ²⁺ -bound conditions represent the channel in closed and open states, which uncovered substantial tertiary and quaternary conformational rearrangements. However, it is unclear how these rearrangements are achieved within the tetrameric channel during channel gating. Here we report the cryo-electron microscopy structures of Danio rerio TRPM2 in the absence of ligands, in complex with Ca ²⁺ alone, and with both ADPR and Ca ²⁺ , resolved to ~4.3 Å, ~3.8 Å, and ~4.2 Å, respectively. In contrast to the published results, our studies capture ligand-bound TRPM2 structures in two-fold symmetric intermediate states, offering a glimpse of the structural transitions that bridge the closed and open conformations.

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Organizational Affiliation: 

Department of Biochemistry, Duke University School of Medicine, Durham, NC, 27710, USA. [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transient receptor potential cation channel subfamily M member 2	A, C [auth B], B [auth C], D	1466	Danio rerio	Mutation(s): 0  Gene Names: trpm2 Membrane Entity: Yes
UniProt
Find proteins for A0A0R4IMY7 (Danio rerio) Explore A0A0R4IMY7  Go to UniProtKB:  A0A0R4IMY7

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.50 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2019-06-30 
• Released Date: 2019-08-28 
Deposition Author(s): Yin, Y., Wu, M., Hsu, A.L., Borschel, W.F., Borgnia, M.J., Lander, G.C., Lee, S.-Y.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)	United States	--

Revision History  

• Version 1.0: 2019-08-28
  Type: Initial release
  
• Version 1.1: 2019-11-27
  Changes: Database references
• Version 1.2: 2019-12-18
  Changes: Author supporting evidence