5AYH

Structure of the entire dynein stalk region


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.011 Å
  • R-Value Free: 0.295 
  • R-Value Work: 0.255 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 

  • 3WUQ - determined by Nishikawa, Y., Oyama, T., Kamiya, N., Kon, T., Toyoshima, Y.Y., Nakamura, H., Kurisu, G.  

Literature

Structural Change in the Dynein Stalk Region Associated with Two Different Affinities for the Microtubule

Nishikawa, Y.Inatomi, M.Iwasaki, H.Kurisu, G.

(2016) J.Mol.Biol. 428: 1886-1896

  • DOI: 10.1016/j.jmb.2015.11.008

  • PubMed Abstract: 
  • Dynein is a large microtubule-based motor complex that requires tight coupling of intra-molecular ATP hydrolysis with the generation of mechanical force and track-binding activity. However, the microtubule-binding domain is structurally separated by ...

    Dynein is a large microtubule-based motor complex that requires tight coupling of intra-molecular ATP hydrolysis with the generation of mechanical force and track-binding activity. However, the microtubule-binding domain is structurally separated by about 15nm from the nucleotide-binding sites by a coiled-coil stalk. Thus, long-range two-way communication is necessary for coordination between the catalytic cycle of ATP hydrolysis and dynein's track-binding affinities. To investigate the structural changes that occur in the dynein stalk region to produce two different microtubule affinities, here we improve the resolution limit of the previously reported structure of the entire stalk region and we investigate structural changes in the dynein stalk and strut/buttress regions by comparing currently available X-ray structures. In the light of recent crystal structures, the basis of the transition from the low-affinity to the high-affinity coiled-coil registry is discussed. A concerted movement model previously reported by Carter and Vale is modified more specifically, and we proposed it as the open zipper model.


    Organizational Affiliation

    Institute for Protein Research, Osaka University, Suita, Osaka 565-0871, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cytoplasmic dynein 1 heavy chain 1
A
276Mus musculusMutation(s): 0 
Gene Names: Dync1h1 (Dhc1, Dnch1, Dnchc1, Dyhc)
Find proteins for Q9JHU4 (Mus musculus)
Go to UniProtKB:  Q9JHU4
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.011 Å
  • R-Value Free: 0.295 
  • R-Value Work: 0.255 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 103.325α = 90.00
b = 103.325β = 90.00
c = 69.709γ = 120.00
Software Package:
Software NamePurpose
PHASERphasing
Cootmodel building
HKL-2000data reduction
PHENIXrefinement
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
JSPSJapan26291014

Revision History 

  • Version 1.0: 2015-12-16
    Type: Initial release
  • Version 1.1: 2016-05-18
    Type: Database references