1E7K

Crystal structure of the spliceosomal 15.5kD protein bound to a U4 snRNA fragment


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.302 
  • R-Value Work: 0.216 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal Structure of the Spliceosomal 15.5Kd Protein Bound to a U4 Snrna Fragment

Vidovic, I.Nottrott, S.Hartmuth, K.Luhrmann, R.Ficner, R.

(2000) Mol.Cell 6: 1331


  • PubMed Abstract: 
  • We have determined the crystal structure of a spliceosomal RNP complex comprising the 15.5kD protein of the human U4/U6.U5 tri-snRNP and the 5' stem-loop of U4 snRNA. The protein interacts almost exclusively with a purine-rich (5+2) internal loop wit ...

    We have determined the crystal structure of a spliceosomal RNP complex comprising the 15.5kD protein of the human U4/U6.U5 tri-snRNP and the 5' stem-loop of U4 snRNA. The protein interacts almost exclusively with a purine-rich (5+2) internal loop within the 5' stem-loop, giving an unusual RNA fold characterized by two tandem sheared G-A base pairs, a high degree of purine stacking, and the accommodation of a single RNA base, rotated out of the RNA chain, in a pocket of the protein. Apart from yielding the structure of an important entity in the pre-mRNA splicing apparatus, this work also implies a model for the complex of the 15.5kD protein with box C/D snoRNAs. It additionally suggests a general recognition principle in a novel family of RNA binding proteins.


    Related Citations: 
    • Functional Interaction of a Novel 15.5Kd [U4/U6.U5] Tri-Snrnp Protein with the 5' Stem-Loop of U4 Snrna
      Nottrott, S.,Hartmuth, K.,Fabrizio, P.,Urlaub, H.,Vidovic, I.,Ficner, R.,Luhrmann, R.
      (1999) Embo J. 18: 6119


    Organizational Affiliation

    Institut für Molekularbiologie und Tumorforschung, Philipps-Universität Marburg, Emil-Mannkopff-Strasse 2, 35037 Marburg, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
15.5 KD RNA BINDING PROTEIN
A, B
128Homo sapiensGene Names: SNU13 (NHP2L1)
Find proteins for P55769 (Homo sapiens)
Go to Gene View: SNU13
Go to UniProtKB:  P55769
Entity ID: 2
MoleculeChainsLengthOrganism
RNA (5'-R(*GP*CP*CP*AP*AP*UP*GP*AP*GP*GP*UP*UP*UP* AP*UP*CP*CP*GP*AP*GP*G*C(-3')C,D22Homo sapiens
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.302 
  • R-Value Work: 0.216 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 45.756α = 90.00
b = 55.287β = 90.00
c = 146.735γ = 90.00
Software Package:
Software NamePurpose
SOLOMONphasing
SOLVEphasing
X-PLORrefinement
SHARPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-02-19
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance