5GSZ

Crystal Structure of the KIF19A Motor Domain Complexed with Mg-ADP

  • Classification: MOTOR PROTEIN
  • Organism(s): Mus musculus
  • Expression System: Escherichia coli K-12

  • Deposited: 2016-08-18 Released: 2016-09-28 
  • Deposition Author(s): Wang, D., Nitta, R., Hirokawa, N.
  • Funding Organization(s): Ministry of Education, Culture, Sports, Science and Technology of Japan; the Ministry of Education, Culture, Sports, Science and Technology of Japan 

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.72 Å
  • R-Value Free: 0.302 
  • R-Value Work: 0.222 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Motility and microtubule depolymerization mechanisms of the Kinesin-8 motor, KIF19A

Wang, D.Nitta, R.Morikawa, M.Yajima, H.Inoue, S.Shigematsu, H.Kikkawa, M.Hirokawa, N.

(2016) Elife 5: --

  • DOI: 10.7554/eLife.18101
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The kinesin-8 motor, KIF19A, accumulates at cilia tips and controls cilium length. Defective KIF19A leads to hydrocephalus and female infertility because of abnormally elongated cilia. Uniquely among kinesins, KIF19A possesses the dual functions of m ...

    The kinesin-8 motor, KIF19A, accumulates at cilia tips and controls cilium length. Defective KIF19A leads to hydrocephalus and female infertility because of abnormally elongated cilia. Uniquely among kinesins, KIF19A possesses the dual functions of motility along ciliary microtubules and depolymerization of microtubules. To elucidate the molecular mechanisms of these functions we solved the crystal structure of its motor domain and determined its cryo-electron microscopy structure complexed with a microtubule. The features of KIF19A that enable its dual function are clustered on its microtubule-binding side. Unexpectedly, a destabilized switch II coordinates with a destabilized L8 to enable KIF19A to adjust to both straight and curved microtubule protofilaments. The basic clusters of L2 and L12 tether the microtubule. The long L2 with a characteristic acidic-hydrophobic-basic sequence effectively stabilizes the curved conformation of microtubule ends. Hence, KIF19A utilizes multiple strategies to accomplish the dual functions of motility and microtubule depolymerization by ATP hydrolysis.


    Organizational Affiliation

    Department of Cell Biology and Anatomy, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Kinesin-like protein KIF19
A
353Mus musculusMutation(s): 0 
Gene Names: Kif19 (Kif19a)
Find proteins for Q99PT9 (Mus musculus)
Go to UniProtKB:  Q99PT9
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download SDF File 
Download CCD File 
A
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.72 Å
  • R-Value Free: 0.302 
  • R-Value Work: 0.222 
  • Space Group: P 42 21 2
Unit Cell:
Length (Å)Angle (°)
a = 122.604α = 90.00
b = 122.604β = 90.00
c = 56.198γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
MOLREPphasing
PHENIXrefinement
PDB_EXTRACTdata extraction
DENZOdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Education, Culture, Sports, Science and Technology of JapanJapan23000013
the Ministry of Education, Culture, Sports, Science and Technology of JapanJapan15K08168

Revision History 

  • Version 1.0: 2016-09-28
    Type: Initial release
  • Version 1.1: 2016-10-12
    Type: Database references
  • Version 1.2: 2016-10-19
    Type: Database references