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 5L1M | pdb_00005l1m

CASKIN2 SAM domain tandem


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 
    0.265 (Depositor), 0.274 (DCC) 
  • R-Value Work: 
    0.245 (Depositor), 0.255 (DCC) 
  • R-Value Observed: 
    0.247 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 5L1M

This is version 1.4 of the entry. See complete history. 

Literature

A new mode of SAM domain mediated oligomerization observed in the CASKIN2 neuronal scaffolding protein.

Smirnova, E., Kwan, J.J., Siu, R., Gao, X., Zoidl, G., Demeler, B., Saridakis, V., Donaldson, L.W.

(2016) Cell Commun Signal 14: 17-17

  • DOI: https://doi.org/10.1186/s12964-016-0140-3
  • Primary Citation Related Structures: 
    5L1M

  • PubMed Abstract: 

    CASKIN2 is a homolog of CASKIN1, a scaffolding protein that participates in a signaling network with CASK (calcium/calmodulin-dependent serine kinase). Despite a high level of homology between CASKIN2 and CASKIN1, CASKIN2 cannot bind CASK due to the absence of a CASK Interaction Domain and consequently, may have evolved undiscovered structural and functional distinctions. We demonstrate that the crystal structure of the Sterile Alpha Motif (SAM) domain tandem (SAM1-SAM2) oligomer from CASKIN2 is different than CASKIN1, with the minimal repeating unit being a dimer, rather than a monomer. Analytical ultracentrifugation sedimentation velocity methods revealed differences in monomer/dimer equilibria across a range of concentrations and ionic strengths for the wild type CASKIN2 SAM tandem and a structure-directed double mutant that could not oligomerize. Further distinguishing CASKIN2 from CASKIN1, EGFP-tagged SAM tandem proteins expressed in Neuro2a cells produced punctae that were distinct both in shape and size. This study illustrates a new way in which neuronal SAM domains can assemble into large macromolecular assemblies that might concentrate and amplify synaptic responses.


  • Organizational Affiliation: 
    • Department of Biology, York University, 4700 Keele Street, Toronto, ON, M3J 1P3, Canada.

Macromolecule Content 

  • Total Structure Weight: 20.31 kDa 
  • Atom Count: 1,100 
  • Modeled Residue Count: 140 
  • Deposited Residue Count: 184 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Caskin-2184Homo sapiensMutation(s): 0 
Gene Names: CASKIN2, KIAA1139
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WXE0 (Homo sapiens)
Explore Q8WXE0 
Go to UniProtKB:  Q8WXE0
PHAROS:  Q8WXE0
GTEx:  ENSG00000177303 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8WXE0
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free:  0.265 (Depositor), 0.274 (DCC) 
  • R-Value Work:  0.245 (Depositor), 0.255 (DCC) 
  • R-Value Observed: 0.247 (Depositor) 
Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 96.46α = 90
b = 96.46β = 90
c = 119.17γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
PHENIXphasing
XDSdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-08-10
    Type: Initial release
  • Version 1.1: 2016-09-07
    Changes: Database references
  • Version 1.2: 2017-11-01
    Changes: Advisory, Author supporting evidence, Derived calculations
  • Version 1.3: 2023-02-08
    Changes: Advisory, Database references
  • Version 1.4: 2023-10-04
    Changes: Data collection