4BWS

Crystal structure of the heterotrimer of PQBP1, U5-15kD and U5-52kD.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.238 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Mutations in the Pqbp1 Gene Prevent its Interaction with the Spliceosomal Protein U5-15Kd.

Mizuguchi, M.Obita, T.Serita, T.Kojima, R.Nabeshima, Y.Okazawa, H.

(2014) Nat.Commun. 5: 3822

  • DOI: 10.1038/ncomms4822
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A loss-of-function of polyglutamine tract-binding protein 1 (PQBP1) induced by frameshift mutations is believed to cause X-linked mental retardation. However, the mechanism by which structural changes in PQBP1 lead to mental retardation is unknown. H ...

    A loss-of-function of polyglutamine tract-binding protein 1 (PQBP1) induced by frameshift mutations is believed to cause X-linked mental retardation. However, the mechanism by which structural changes in PQBP1 lead to mental retardation is unknown. Here we present the crystal structure of a C-terminal fragment of PQBP1 in complex with the spliceosomal protein U5-15 kD. The U5-15 kD hydrophobic groove recognizes a YxxPxxVL motif in PQBP1, and mutations within this motif cause a loss-of-function phenotype of PQBP1 in vitro. The YxxPxxVL motif is absent in all PQBP1 frameshift mutants seen in cases of mental retardation. These results suggest a mechanism by which the loss of the YxxPxxVL motif could lead to the functional defects seen in this type of mental retardation.


    Organizational Affiliation

    1] Faculty of Pharmaceutical Sciences, University of Toyama; 2630, Sugitani, Toyama 930-0194, Japan [2] Graduate School of Innovative Life Science, University of Toyama; 2630, Sugitani, Toyama 930-0194, Japan [3].




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
THIOREDOXIN-LIKE PROTEIN 4A
A, D
142Homo sapiensMutation(s): 0 
Gene Names: TXNL4A (DIM1, TXNL4)
Find proteins for P83876 (Homo sapiens)
Go to Gene View: TXNL4A
Go to UniProtKB:  P83876
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
POLYGLUTAMINE-BINDING PROTEIN 1
B, E
37Homo sapiensMutation(s): 0 
Gene Names: PQBP1 (NPW38)
Find proteins for O60828 (Homo sapiens)
Go to Gene View: PQBP1
Go to UniProtKB:  O60828
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
CD2 ANTIGEN CYTOPLASMIC TAIL-BINDING PROTEIN 2
C, F
71Homo sapiensMutation(s): 0 
Gene Names: CD2BP2 (KIAA1178)
Find proteins for O95400 (Homo sapiens)
Go to Gene View: CD2BP2
Go to UniProtKB:  O95400
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.238 
  • Space Group: I 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 144.180α = 90.00
b = 40.470β = 95.92
c = 168.171γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
SCALAdata scaling
PHENIXrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-04-30
    Type: Initial release
  • Version 1.1: 2014-05-14
    Type: Database references