191-Shima-KIF5Cmove

Project

Title
KIF5C running on various states of microtubules
Description
Kinesin-1, the founding member of the kinesin superfamily of proteins, is known to use only a subset of microtubules for transport in living cells. This biased use of microtubules is proposed as the guidance cue for polarized transport in neurons, but the underlying mechanisms are still poorly understood. Here, we report that kinesin-1 binding changes the microtubule lattice and promotes further kinesin-1 binding. This high-affinity state requires the binding of kinesin-1 in the nucleotide- free state. Microtubules return to the initial low-affinity state by washing out the binding kinesin-1 or by the binding of non-hydrolyzable ATP analogue AMPPNP to kinesin-1. X-ray fiber diffraction, fluorescence speckle microscopy, and second- harmonic generation microscopy, as well as cryo-EM, collectively demonstrated that the binding of nucleotide-free kinesin-1 to GDP microtubules changes the conformation of the GDP microtubule to a conformation resembling the GTP microtubule.
License
CC BY
Released at
Oct. 20, 2025, midnight
Updated at
Funding
This work was supported by the Ministry of Education, Cul- ture, Sports, Science and Technology through a Grant-in-Aid for Specially Promoted Research (grant 23000013 to N. Hi- rokawa) and Grant-in-Aid for Scientific Research (KAKENHI grant 16H06372 to N. Hirokawa; grants 16H05119, 15H01334, 26115721, 26650069, and 25293046 to Y. Okada; grants 15H01656 and 17H05897 to H. Shigematsu; and grant 15K08168 to R. Nitta), the Uehara Memorial Foundation (Y. Okada), the Takeda Science Foundation (Y. Okada and R. Nitta), the Mochida Memorial Foun- dation for Medical and Pharmaceutical Research (R. Nitta), the RIKEN Special Postdoctoral Researchers Program (T. Shima), the All RIKEN Research Project on Single Cell (Y. Okada), and the RIKEN Pioneering Project on Dynamic Structural Biology (Y. Okada, H. Shigematsu, and M. Shirouzu).
# of image datasets
6

Papers

Papers
Paper information: Shima T, Morikawa M, Kaneshiro J, Kambara T, Kamimura S, Yagi T, Iwamoto H, Uemura S, Shigematsu H, Shirouzu M, Ichimura T, Watanabe TM, Nitta R, Okada Y, Hirokawa N. Kinesin-binding-triggered conformation switching of microtubules contributes to polarized transport. J Cell Biol. 2018 Dec 3;217(12):4164-4183.,
Pubmed ID: 30297389,
PMCID: PMC6279379,
DOI: https://doi.org/10.1083/jcb.201711178,
URL: https://pubmed.ncbi.nlm.nih.gov/30297389/

Contacts

Contacts
Yasushi Okada (Imaging Contributor) , Laboratory for Cell Polarity Regulation , RIKEN BDR
Nobutaka Hirokawa (Contact) , Department of Cell Biology and Anatomy, Graduate School of Medicine , The University of Tokyo
Tomohiro Shima (Imaging Contributor)
Sotaro Uemura (Imaging Contributor)

Biosamples

Organisms

Strains

Cells

Cell lines

Ontologies

UBERON
Anatomical entities
GO: Biological processes
microtubule-based transport (GO:0099111)
microtubule bundle maintenance (GO:0062195)
microtubule depolymerization (GO:0007019)
GO: Cellular components
GO: Molecular functions
microtubule motor activity (GO:0003777)

Genetics

Gene names
Protein names
Tubulin alpha-1A chain, Tubulin beta chain (P02550, P02554)
Kinesin heavy chain isoform 5C (P28738)
Genetic methods
Protein tags
EGFP (FBbi:00000082)
Probes
Oligo Primer
Genotype

Treatments

Reagent or Compound
Concentration
Fold Dilution
AMP-PNP (CHEBI:47785)
1 millimolar (UO_0000063)
AMP-PNP (CHEBI:47785)
1 millimolar (UO_0000063)
AMP-PNP (CHEBI:47785)
1 millimolar (UO_0000063)

Imaging Methods

Dimensions
1475x1679x1x1x17, 1475x1679x1x1x26, 1475x1679x1x1x21, 512x512x1x2x71, 512x512x1x1x1000,
X scales
0.017 nanometer^{-1}/pixel, 60 nanometer/pixel,
Y scales
0.017 nanometer^{-1}/pixel, 60 nanometer/pixel,
Z scales
,
T scales
0.1 seconds per time interval, 15 seconds per time interval, 2 seconds per time interval, 5 seconds per time interval,
Channels
2 channel, 1 channel,
Microscopy types
evanescent wave microscopy (FBbi:00000617)
time lapse microscopy (FBbi:00000249)
Detection methods
Visualization methods
Illumination methods
Sources of contrast
Contrast enhancing methods
Resolution enhancing methods
Imaged parameters
Sample preparation methods

Instruments

Body
Olympus-Evident IX83
Model
Light source
Coherent, Obis LX 488
Detector
iXon3 EM CCD camera
Objective
UP- lanSApo, NA 1.40, oil; Olympus
Filter set
Dichroic
Body
Model
Light source
A synchrotron radiation x-ray beam at BL45XU beamline of SPring-8
Detector
Pilatus 300K-W detector system
Objective
Filter set
Dichroic
Body
Olympus-Evident IX83
Model
Light source
Coherent, Obis LX 532 (for microtubule) and Cooherent, CUBE 640 (for KIF5C)
Detector
iXon3 EM CCD camera
Objective
UP- lanSApo, NA 1.40, oil; Olympus
Filter set
Dichroic

Datasets

Dataset name
Organism
Gene / Protein
Dimensions
File size
SSBD:OMERO
Download
()
Kif5c / Kinesin heavy chain isoform 5C (P28738)
512x512x1x1x1000
531MB
zip
()
Kif5c / Kinesin heavy chain isoform 5C (P28738) / Tubulin alpha-1A chain, Tubulin beta chain (P02550, P02554)
512x512x1x1x1000
500MB
zip
()
1475x1679x1x1x26
257MB
zip
()
1475x1679x1x1x21
208MB
zip
()
1475x1679x1x1x17
198MB
zip
()
512x512x1x2x71
45MB
zip