8YEJ

Cryo-EM structure of the channelrhodopsin GtCCR2 focused on the monomer

• PDB DOI: https://doi.org/10.2210/pdb8YEJ/pdb
• EM Map EMD-39197: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Guillardia theta CCMP2712
• Expression System: Homo sapiens
• Mutation(s): No 
• Membrane Protein: Yes  PDBTM


• Deposited: 2024-02-22 Released: 2024-09-04 
• Deposition Author(s): Tanaka, T., Iida, W., Sano, F.K., Oda, K., Shihoya, W., Nureki, O.
• Funding Organization(s): Japan Society for the Promotion of Science (JSPS), Japan Agency for Medical Research and Development (AMED)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.86 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

The high-light-sensitivity mechanism and optogenetic properties of the bacteriorhodopsin-like channelrhodopsin GtCCR4

Tanaka, T., Hososhima, H., Yamashita, Y., Sugimoto, T., Nakamura, T., Shigemura, S., Iida, W., Sano, F.K., Oda, K., Uchihashi, T., Katayama, K., Furutani, Y., Tsunoda, S.P., Shihoya, W., Kandori, H., Nureki, O.

(2024) Mol Cell 

• DOI: https://doi.org/10.1016/j.molcel.2024.08.016

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 53.11 kDa 
• Atom Count: 1,946 
• Modelled Residue Count: 240 
• Deposited Residue Count: 464 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GtCCR2	A	464	Guillardia theta CCMP2712	Mutation(s): 0  Gene Names: GUITHDRAFT_99928 Membrane Entity: Yes
UniProt
Find proteins for L1K1K8 (Guillardia theta (strain CCMP2712)) Explore L1K1K8  Go to UniProtKB:  L1K1K8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
RET (Subject of Investigation/LOI)	B [auth A]	RETINAL C20 H28 O NCYCYZXNIZJOKI-OVSJKPMPSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.86 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	3.1

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-04 
Deposition Author(s): Tanaka, T., Iida, W., Sano, F.K., Oda, K., Shihoya, W., Nureki, O.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	22KJ0577
Japan Society for the Promotion of Science (JSPS)	Japan	19H05777
Japan Society for the Promotion of Science (JSPS)	Japan	22K19371
Japan Society for the Promotion of Science (JSPS)	Japan	22H02751
Japan Society for the Promotion of Science (JSPS)	Japan	21H05037
Japan Agency for Medical Research and Development (AMED)	Japan	JP233fa627001
Japan Agency for Medical Research and Development (AMED)	Japan	JP23ama121002
Japan Agency for Medical Research and Development (AMED)	Japan	JP23ama121012

Revision History  

• Version 1.0: 2024-09-04
  Type: Initial release