Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction | 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: 675.93 kDa 
• Atom Count: 35516 
• Modelled Residue Count: 5064 
• Deposited Residue Count: 5892 
• Unique protein chains: 1

6DRJ

Structure of TRPM2 ion channel receptor by single particle electron cryo-microscopy, ADPR/Ca2+ bound state

• PDB DOI: 10.2210/pdb6DRJ/pdb
• EM Map EMD-7999:EMDBEMDataResource

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


• Deposited: 2018-06-12 Released: 2018-09-19 
• Deposition Author(s): Du, J., Lu, W., Huang, Y., Winkler, P., Sun, W.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Architecture of the TRPM2 channel and its activation mechanism by ADP-ribose and calcium.

Huang, Y., Winkler, P.A., Sun, W., Lu, W., Du, J.

(2018) Nature 562: 145-149

• PubMed: 30250252 
• DOI: 10.1038/s41586-018-0558-4
• Primary Citation of Related Structures:  
  6DRJ, 6DRK


• PubMed Abstract: 
  

Transient receptor potential melastatin 2 (TRPM2) is a calcium-permeable, non-selective cation channel that has an essential role in diverse physiological processes such as core body temperature regulation, immune response and apoptosis ^1-4 . TRPM2 is polymodal and can be activated by a wide range of stimuli ^1-7 , including temperature, oxidative stress and NAD ⁺ -related metabolites such as ADP-ribose (ADPR). Its activation results in both Ca ²⁺ entry across the plasma membrane and Ca ²⁺ release from lysosomes ⁸ , and has been linked to diseases such as ischaemia-reperfusion injury, bipolar disorder and Alzheimer's disease ^9-11 . Here we report the cryo-electron microscopy structures of the zebrafish TRPM2 in the apo resting (closed) state and in the ADPR/Ca ²⁺ -bound active (open) state, in which the characteristic NUDT9-H domains hang underneath the MHR1/2 domain. We identify an ADPR-binding site located in the bi-lobed structure of the MHR1/2 domain. Our results provide an insight into the mechanism of activation of the TRPM channel family and define a framework for the development of therapeutic agents to treat neurodegenerative diseases and temperature-related pathological conditions.

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Organizational Affiliation: 

Van Andel Research Institute, Grand Rapids, MI, USA. [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transient receptor potential cation channel, subfamily M, member 2	A, B, C, D	1473	Danio rerio	Mutation(s): 0  Gene Names: trpm2 Membrane Entity: Yes
UniProt
Find proteins for A0A0R4IMY7 (Danio rerio) Explore A0A0R4IMY7  Go to UniProtKB:  A0A0R4IMY7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
APR	E [auth A], G [auth B], I [auth C], K [auth D]	ADENOSINE-5-DIPHOSPHORIBOSE C15 H23 N5 O14 P2 SRNWOUGRCWSEMX-KEOHHSTQSA-N
CA	F [auth A], H [auth B], J [auth C], L [auth D]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2018-06-12 
• Released Date: 2018-09-19 
Deposition Author(s): Du, J., Lu, W., Huang, Y., Winkler, P., Sun, W.

Revision History  

• Version 1.0: 2018-09-19
  Type: Initial release
  
• Version 1.1: 2018-09-26
  Changes: Data collection, Structure summary
• Version 1.2: 2018-10-10
  Changes: Data collection, Database references, Structure summary