6F9I | pdb_00006f9i

Crystal structure of KLC2 bound to the second tryptophan-acidic motif peptide from calsyntenin-1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.99 Å
  • R-Value Free: 
    0.273 (Depositor), 0.279 (DCC) 
  • R-Value Work: 
    0.253 (Depositor), 0.262 (DCC) 
  • R-Value Observed: 
    0.254 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 6F9I

This is version 1.3 of the entry. See complete history

Literature

Insights into Kinesin-1 Activation from the Crystal Structure of KLC2 Bound to JIP3.

Cockburn, J.J.B.Hesketh, S.J.Mulhair, P.Thomsen, M.O'Connell, M.J.Way, M.

(2018) Structure 26: 1486-1498.e6

  • DOI: https://doi.org/10.1016/j.str.2018.07.011
  • Primary Citation Related Structures: 
    6EJN, 6F9I

  • PubMed Abstract: 

    Kinesin-1 transports numerous cellular cargoes along microtubules. The kinesin-1 light chain (KLC) mediates cargo binding and regulates kinesin-1 motility. To investigate the molecular basis for kinesin-1 recruitment and activation by cargoes, we solved the crystal structure of the KLC2 tetratricopeptide repeat (TPR) domain bound to the cargo JIP3. This, combined with biophysical and molecular evolutionary analyses, reveals a kinesin-1 cargo binding site, located on KLC TPR1, which is conserved in homologs from sponges to humans. In the complex, JIP3 crosslinks two KLC2 TPR domains via their TPR1s. We show that TPR1 forms a dimer interface that mimics JIP3 binding in all crystal structures of the unbound KLC TPR domain. We propose that cargo-induced dimerization of the KLC TPR domains via TPR1 is a general mechanism for activating kinesin-1. We relate this to activation by tryptophan-acidic cargoes, explaining how different cargoes activate kinesin-1 through related molecular mechanisms.


  • Organizational Affiliation
    • Astbury Centre for Structural Molecular Biology, University of Leeds, Leeds LS2 9JT, UK. Electronic address: j.j.b.cockburn@leeds.ac.uk.

Macromolecule Content 

  • Total Structure Weight: 70.28 kDa 
  • Atom Count: 4,328 
  • Modeled Residue Count: 544 
  • Deposited Residue Count: 616 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Kinesin light chain 2A,
C [auth B]
293Mus musculusMutation(s): 0 
Gene Names: Klc2mCG_8395
UniProt & NIH Common Fund Data Resources
Find proteins for Q91YS4 (Mus musculus)
Explore Q91YS4 
Go to UniProtKB:  Q91YS4
IMPC:  MGI:107953
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ91YS4
Sequence Annotations
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Reference Sequence
Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Calsyntenin-1B [auth X],
D [auth C]
15Mus musculusMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9EPL2 (Mus musculus)
Explore Q9EPL2 
Go to UniProtKB:  Q9EPL2
IMPC:  MGI:1929895
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9EPL2
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.99 Å
  • R-Value Free:  0.273 (Depositor), 0.279 (DCC) 
  • R-Value Work:  0.253 (Depositor), 0.262 (DCC) 
  • R-Value Observed: 0.254 (Depositor) 
Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.442α = 90
b = 75.442β = 90
c = 303.356γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Royal SocietyUnited KingdomRG150205

Revision History  (Full details and data files)

  • Version 1.0: 2018-09-05
    Type: Initial release
  • Version 1.1: 2018-09-19
    Changes: Data collection, Database references
  • Version 1.2: 2018-11-14
    Changes: Data collection, Database references
  • Version 1.3: 2024-01-17
    Changes: Data collection, Database references, Refinement description