2PG1

Structural analysis of a cytoplasmic dynein Light Chain-Intermediate Chain complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.208 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural and thermodynamic characterization of a cytoplasmic dynein light chain-intermediate chain complex

Williams, J.C.Roulhac, P.L.Roy, A.G.Vallee, R.B.Fitzgerald, M.C.Hendrickson, W.A.

(2007) Proc.Natl.Acad.Sci.Usa 104: 10028-10033

  • DOI: 10.1073/pnas.0703614104

  • PubMed Abstract: 
  • Cytoplasmic dynein is a microtubule-based motor protein complex that plays important roles in a wide range of fundamental cellular processes, including vesicular transport, mitosis, and cell migration. A single major form of cytoplasmic dynein associ ...

    Cytoplasmic dynein is a microtubule-based motor protein complex that plays important roles in a wide range of fundamental cellular processes, including vesicular transport, mitosis, and cell migration. A single major form of cytoplasmic dynein associates with membranous organelles, mitotic kinetochores, the mitotic and migratory cell cortex, centrosomes, and mRNA complexes. The ability of cytoplasmic dynein to recognize such diverse forms of cargo is thought to be associated with its several accessory subunits, which reside at the base of the molecule. The dynein light chains (LCs) LC8 and TcTex1 form a subcomplex with dynein intermediate chains, and they also interact with numerous protein and ribonucleoprotein partners. This observation has led to the hypothesis that these subunits serve to tether cargo to the dynein motor. Here, we present the structure and a thermodynamic analysis of a complex of LC8 and TcTex1 associated with their intermediate chain scaffold. The intermediate chains effectively block the major putative cargo binding sites within the light chains. These data suggest that, in the dynein complex, the LCs do not bind cargo, in apparent disagreement with a role for LCs in dynein cargo binding interactions.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, Thomas Jefferson University, Philadelphia, PA 19107, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Dynein light chain 1, cytoplasmic
A, B, C, D
91Drosophila melanogasterGene Names: ctp (Cdlc1, ddlc1)
Find proteins for Q24117 (Drosophila melanogaster)
Go to UniProtKB:  Q24117
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Dynein light chain Tctex-type
E, F, G, H
111Drosophila melanogasterGene Names: Dlc90F (Tctex)
Find proteins for Q94524 (Drosophila melanogaster)
Go to UniProtKB:  Q94524
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Cytoplasmic dynein 1 intermediate chain 2
I, J, K, L
33Rattus norvegicusGene Names: Dync1i2 (Dnci2, Dncic2)
Find proteins for Q62871 (Rattus norvegicus)
Go to UniProtKB:  Q62871
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
C, D, E, G, J
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
E, F, G, H
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.208 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 116.969α = 90.00
b = 119.870β = 90.00
c = 211.702γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
SOLVEphasing
ADSCdata collection
PDB_EXTRACTdata extraction
CNSrefinement
RESOLVEphasing
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-06-05
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance