5ZBS

Crystal Structure of Kinesin-3 KIF13B motor Y73C mutant


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.172 
  • R-Value Observed: 0.174 

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This is version 1.2 of the entry. See complete history


Literature

Structural Delineation of the Neck Linker of Kinesin-3 for Processive Movement.

Ren, J.Zhang, Y.Wang, S.Huo, L.Lou, J.Feng, W.

(2018) J Mol Biol 430: 2030-2041

  • DOI: https://doi.org/10.1016/j.jmb.2018.05.010
  • Primary Citation of Related Structures:  
    5ZBR, 5ZBS

  • PubMed Abstract: 

    Processive kinesin motors contain a neck linker (NL) that mediates the chemo-mechanical coupling and controls the directionality and processivity. However, kinesin-3 NL remains poorly determined due to the lack of the structural information of the junction with the following neck coil (NC). Here, we determined the structure of the motor domain (MD)-NL-NC NT tandem of KIF13B that defines the junction between NL and NC and delineates kinesin-3 NL. Unexpectedly, the length of kinesin-3 NL is much shorter than the previously predicted one. In the MD-NL-NC NT structure, NL docks onto the MD with a conventional mode but the interaction between NL and the MD is relatively weak due to the shorter N-terminal cover strand of the MD. The optimal short NL and its weak interaction with the MD would generate the tight inter-head strain and facilitate the NL undocking, which may contribute to the fast and superprocessive motility of kinesin-3.


  • Organizational Affiliation

    National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, 15 Datun Road, Beijing 100101, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Kinesin family member 13BA [auth B],
B [auth A],
C
375Rattus norvegicusMutation(s): 1 
Gene Names: Kif13b
UniProt
Find proteins for A0A0G2K8Z9 (Rattus norvegicus)
Explore A0A0G2K8Z9 
Go to UniProtKB:  A0A0G2K8Z9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0G2K8Z9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.172 
  • R-Value Observed: 0.174 
  • Space Group: P 32
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 107.311α = 90
b = 107.311β = 90
c = 91.599γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
HKL-2000data collection
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Key R&D Program of ChinaChina2017YFA0503501
National Major Basic Research Program of ChinaChina2014CB910202
National Natural Science Foundation of ChinaChina31470746
National Natural Science Foundation of ChinaChina31770786
National Natural Science Foundation of ChinaChina31600608
National Natural Science Foundation of ChinaChina31600622

Revision History  (Full details and data files)

  • Version 1.0: 2018-05-30
    Type: Initial release
  • Version 1.1: 2018-06-27
    Changes: Data collection, Database references
  • Version 1.2: 2023-11-22
    Changes: Data collection, Database references, Derived calculations, Refinement description