6FNZ

Crystal Structure of domain-swapped C-terminal domain of human doublecortin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.23 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.207 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Domain swap in the C-terminal ubiquitin-like domain of human doublecortin.

Rufer, A.C.Kusznir, E.Burger, D.Stihle, M.Ruf, A.Rudolph, M.G.

(2018) Acta Crystallogr D Struct Biol 74: 450-462

  • DOI: 10.1107/S2059798318004813

  • PubMed Abstract: 
  • Doublecortin, a microtubule-associated protein that is only produced during neurogenesis, cooperatively binds to microtubules and stimulates microtubule polymerization and cross-linking by unknown mechanisms. A domain swap is observed in the crystal ...

    Doublecortin, a microtubule-associated protein that is only produced during neurogenesis, cooperatively binds to microtubules and stimulates microtubule polymerization and cross-linking by unknown mechanisms. A domain swap is observed in the crystal structure of the C-terminal domain of doublecortin. As determined by analytical ultracentrifugation, an open conformation is also present in solution. At higher concentrations, higher-order oligomers of the domain are formed. The domain swap and additional interfaces observed in the crystal lattice can explain the formation of doublecortin tetramers or multimers, in line with the analytical ultracentrifugation data. Taken together, the domain swap offers a mechanism for the observed cooperative binding of doublecortin to microtubules. Doublecortin-induced cross-linking of microtubules can be explained by the same mechanism. The effect of several mutations leading to lissencephaly and double-cortex syndrome can be traced to the domain swap and the proposed self-association of doublecortin.


    Organizational Affiliation

    pRED, Therapeutic Modalities, F. Hoffmann-La Roche, 4070 Basel, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Neuronal migration protein doublecortin
A, B, C, D
81Homo sapiensMutation(s): 0 
Gene Names: DCX (DBCN, LISX)
Find proteins for O43602 (Homo sapiens)
Go to Gene View: DCX
Go to UniProtKB:  O43602
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
possible peptide
E, F, G
6N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.23 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.207 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 98.450α = 90.00
b = 98.450β = 90.00
c = 114.810γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
XSCALEdata scaling
XDSdata reduction
XSCALEdata scaling
PHENIXrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-04-04
    Type: Initial release
  • Version 1.1: 2018-05-09
    Type: Data collection, Database references
  • Version 1.2: 2018-10-24
    Type: Data collection, Derived calculations