3SG2

Crystal Structure of GCaMP2-T116V,D381Y


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.173 
  • R-Value Observed: 0.175 

Starting Model: experimental
View more details

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Optimization of a GCaMP calcium indicator for neural activity imaging.

Akerboom, J.Chen, T.W.Wardill, T.J.Tian, L.Marvin, J.S.Mutlu, S.Calderon, N.C.Esposti, F.Borghuis, B.G.Sun, X.R.Gordus, A.Orger, M.B.Portugues, R.Engert, F.Macklin, J.J.Filosa, A.Aggarwal, A.Kerr, R.A.Takagi, R.Kracun, S.Shigetomi, E.Khakh, B.S.Baier, H.Lagnado, L.Wang, S.S.Bargmann, C.I.Kimmel, B.E.Jayaraman, V.Svoboda, K.Kim, D.S.Schreiter, E.R.Looger, L.L.

(2012) J Neurosci 32: 13819-13840

  • DOI: https://doi.org/10.1523/JNEUROSCI.2601-12.2012
  • Primary Citation of Related Structures:  
    3SG2, 3SG3, 3SG4, 3SG5, 3SG6, 3SG7

  • PubMed Abstract: 

    Genetically encoded calcium indicators (GECIs) are powerful tools for systems neuroscience. Recent efforts in protein engineering have significantly increased the performance of GECIs. The state-of-the art single-wavelength GECI, GCaMP3, has been deployed in a number of model organisms and can reliably detect three or more action potentials in short bursts in several systems in vivo. Through protein structure determination, targeted mutagenesis, high-throughput screening, and a battery of in vitro assays, we have increased the dynamic range of GCaMP3 by severalfold, creating a family of "GCaMP5" sensors. We tested GCaMP5s in several systems: cultured neurons and astrocytes, mouse retina, and in vivo in Caenorhabditis chemosensory neurons, Drosophila larval neuromuscular junction and adult antennal lobe, zebrafish retina and tectum, and mouse visual cortex. Signal-to-noise ratio was improved by at least 2- to 3-fold. In the visual cortex, two GCaMP5 variants detected twice as many visual stimulus-responsive cells as GCaMP3. By combining in vivo imaging with electrophysiology we show that GCaMP5 fluorescence provides a more reliable measure of neuronal activity than its predecessor GCaMP3. GCaMP5 allows more sensitive detection of neural activity in vivo and may find widespread applications for cellular imaging in general.


  • Organizational Affiliation

    Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn, Virginia 20147, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Myosin light chain kinase, Green fluorescent protein, Calmodulin-1 chimera449Gallus gallusAequorea victoriaRattus norvegicusMutation(s): 11 
EC: 2.7.11.18
UniProt
Find proteins for P42212 (Aequorea victoria)
Explore P42212 
Go to UniProtKB:  P42212
Find proteins for P11799 (Gallus gallus)
Explore P11799 
Go to UniProtKB:  P11799
Find proteins for P0DP29 (Rattus norvegicus)
Explore P0DP29 
Go to UniProtKB:  P0DP29
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP42212P0DP29P11799
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.173 
  • R-Value Observed: 0.175 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 119.64α = 90
b = 119.64β = 90
c = 96.93γ = 90
Software Package:
Software NamePurpose
SPECdata collection
PHASERphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-06-20
    Type: Initial release
  • Version 1.1: 2014-01-08
    Changes: Database references
  • Version 1.2: 2017-06-28
    Changes: Database references, Source and taxonomy, Structure summary
  • Version 1.3: 2023-09-13
    Changes: Data collection, Database references, Derived calculations, Refinement description
  • Version 1.4: 2023-12-06
    Changes: Data collection
  • Version 1.5: 2024-10-30
    Changes: Structure summary