2WBE

Kinesin-5-Tubulin Complex with AMPPNP


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9.4 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

9-Angstrom Structure of a Microtubule-Bound Mitotic Motor.

Bodey, A.J.Kikkawa, M.Moores, C.A.

(2009) J.Mol.Biol. 388: 218

  • DOI: 10.1016/j.jmb.2009.03.008

  • PubMed Abstract: 
  • Kinesin-5 (K5) motors are important components of the microtubule (MT)-based cell division machinery and are targets for small-molecule inhibitors currently in cancer clinical trials. However, the nature of the K5-MT interaction and the regulatory me ...

    Kinesin-5 (K5) motors are important components of the microtubule (MT)-based cell division machinery and are targets for small-molecule inhibitors currently in cancer clinical trials. However, the nature of the K5-MT interaction and the regulatory mechanisms that control it remain unclear. Using cryo-electron microscopy and image processing, we calculated the structure of a K5 motor bound to MTs at 9 A resolution, providing insight into this important interaction. Our reconstruction reveals the K5 motor domain in an ATP-like conformation in which MT binding induces the conserved nucleotide-sensing switch I and II loops to form a compact subdomain around the bound nucleotide. Our reconstruction also reveals a novel conformation for the K5-specific drug-binding loop 5, suggesting a possible role for it in switching K5s between force generation and diffusional modes of MT binding. Our data thus shed light on regulation of the interaction between spindle components important for chromosome segregation.


    Organizational Affiliation

    School of Crystallography, The Institute of Structural and Molecular Biology, Birkbeck College, Malet Street, London WC1E 7HX, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TUBULIN ALPHA-1D CHAIN
A
451Bos taurusMutation(s): 0 
Gene Names: TUBA1D
Find proteins for Q2HJ86 (Bos taurus)
Go to UniProtKB:  Q2HJ86
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
TUBULIN BETA-2B CHAIN
B
445Bos taurusMutation(s): 0 
Gene Names: TUBB2B
Find proteins for Q6B856 (Bos taurus)
Go to Gene View: TUBB2B
Go to UniProtKB:  Q6B856
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
BIPOLAR KINESIN KRP-130
C
373Drosophila melanogasterMutation(s): 0 
Gene Names: Klp61F (KLP2)
Find proteins for P46863 (Drosophila melanogaster)
Go to UniProtKB:  P46863
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GDP
Query on GDP

Download SDF File 
Download CCD File 
B
GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
 Ligand Interaction
GTP
Query on GTP

Download SDF File 
Download CCD File 
A
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
 Ligand Interaction
ANP
Query on ANP

Download SDF File 
Download CCD File 
C
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
C10 H17 N6 O12 P3
PVKSNHVPLWYQGJ-KQYNXXCUSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, C
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
TA1
Query on TA1

Download SDF File 
Download CCD File 
B
TAXOL
C47 H51 N O14
RCINICONZNJXQF-MZXODVADSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9.4 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-03-24
    Type: Initial release
  • Version 1.1: 2013-07-24
    Type: Database references, Derived calculations, Other, Refinement description, Source and taxonomy, Version format compliance
  • Version 1.2: 2016-07-27
    Type: Atomic model, Database references, Derived calculations, Non-polymer description, Other, Source and taxonomy, Structure summary
  • Version 1.3: 2017-04-19
    Type: Other
  • Version 1.4: 2018-10-03
    Type: Author supporting evidence, Data collection