6CSN

Crystal structure of the designed light-gated anion channel iC++ at pH8.5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.232 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural mechanisms of selectivity and gating in anion channelrhodopsins.

Kato, H.E.Kim, Y.S.Paggi, J.M.Evans, K.E.Allen, W.E.Richardson, C.Inoue, K.Ito, S.Ramakrishnan, C.Fenno, L.E.Yamashita, K.Hilger, D.Lee, S.Y.Berndt, A.Shen, K.Kandori, H.Dror, R.O.Kobilka, B.K.Deisseroth, K.

(2018) Nature 561: 349-354

  • DOI: 10.1038/s41586-018-0504-5
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Both designed and natural anion-conducting channelrhodopsins (dACRs and nACRs, respectively) have been widely applied in optogenetics (enabling selective inhibition of target-cell activity during animal behaviour studies), but each class exhibits per ...

    Both designed and natural anion-conducting channelrhodopsins (dACRs and nACRs, respectively) have been widely applied in optogenetics (enabling selective inhibition of target-cell activity during animal behaviour studies), but each class exhibits performance limitations, underscoring trade-offs in channel structure-function relationships. Therefore, molecular and structural insights into dACRs and nACRs will be critical not only for understanding the fundamental mechanisms of these light-gated anion channels, but also to create next-generation optogenetic tools. Here we report crystal structures of the dACR iC++, along with spectroscopic, electrophysiological and computational analyses that provide unexpected insights into pH dependence, substrate recognition, channel gating and ion selectivity of both dACRs and nACRs. These results enabled us to create an anion-conducting channelrhodopsin integrating the key features of large photocurrent and fast kinetics alongside exclusive anion selectivity.


    Organizational Affiliation

    OptoBioTechnology Research Center, Nagoya Institute of Technology, Nagoya, Japan.,PRESTO, Japan Science and Technology Agency, Kawaguchi, Japan.,Department of Bioengineering, Stanford University, Stanford, CA, USA. deissero@stanford.edu.,Department of Biology, Stanford University, Stanford, CA, USA.,Department of Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA, USA. deissero@stanford.edu.,Department of Bioengineering, Stanford University, Stanford, CA, USA.,PRESTO, Japan Science and Technology Agency, Kawaguchi, Japan. hekato@stanford.edu.,Department of Computer Science, Stanford University, Stanford, CA, USA.,Institute for Computational and Mathematical Engineering, Stanford University, Stanford, CA, USA.,Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA, USA.,Howard Hughes Medical Institute, Stanford University, Stanford, CA, USA. deissero@stanford.edu.,RIKEN SPring-8 Center, Hyogo, Japan.,Department of Life Science and Applied Chemistry, Nagoya Institute of Technology, Nagoya, Japan.,Howard Hughes Medical Institute, Stanford University, Stanford, CA, USA.,Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA, USA. hekato@stanford.edu.,Department of Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
iC++
A
292N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
OLA
Query on OLA

Download SDF File 
Download CCD File 
A
OLEIC ACID
C18 H34 O2
ZQPPMHVWECSIRJ-KTKRTIGZSA-N
 Ligand Interaction
CL
Query on CL

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Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
RET
Query on RET

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Download CCD File 
A
RETINAL
C20 H28 O
NCYCYZXNIZJOKI-OVSJKPMPSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.232 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 60.520α = 90.00
b = 142.520β = 90.00
c = 91.250γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
XSCALEdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Science and TechnologyJapanJPMJPR1782
National Institutes of Health/National Institute of Mental HealthUnited StatesR01MH075957

Revision History 

  • Version 1.0: 2018-09-05
    Type: Initial release
  • Version 1.1: 2018-09-12
    Type: Data collection, Database references
  • Version 1.2: 2018-10-03
    Type: Data collection, Database references