4BS2

NMR structure of human TDP-43 tandem RRMs in complex with UG-rich RNA


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 20 
  • Selection Criteria: LOWEST ENERGY AND RESTRAINT VIOLATION 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Molecular Basis of Ug-Rich RNA Recognition by the Human Splicing Factor Tdp-43

Lukavsky, P.J.Daujotyte, D.Tollervey, J.R.Ule, J.Stuani, C.Buratti, E.Baralle, F.E.Damberger, F.F.Allain, F.H.T.

(2013) Nat.Struct.Mol.Biol. 20: 1443

  • DOI: 10.1038/nsmb.2698

  • PubMed Abstract: 
  • TDP-43 encodes an alternative-splicing regulator with tandem RNA-recognition motifs (RRMs). The protein regulates cystic fibrosis transmembrane regulator (CFTR) exon 9 splicing through binding to long UG-rich RNA sequences and is found in cytoplasmic ...

    TDP-43 encodes an alternative-splicing regulator with tandem RNA-recognition motifs (RRMs). The protein regulates cystic fibrosis transmembrane regulator (CFTR) exon 9 splicing through binding to long UG-rich RNA sequences and is found in cytoplasmic inclusions of several neurodegenerative diseases. We solved the solution structure of the TDP-43 RRMs in complex with UG-rich RNA. Ten nucleotides are bound by both RRMs, and six are recognized sequence specifically. Among these, a central G interacts with both RRMs and stabilizes a new tandem RRM arrangement. Mutations that eliminate recognition of this key nucleotide or crucial inter-RRM interactions disrupt RNA binding and TDP-43-dependent splicing regulation. In contrast, point mutations that affect base-specific recognition in either RRM have weaker effects. Our findings reveal not only how TDP-43 recognizes UG repeats but also how RNA binding-dependent inter-RRM interactions are crucial for TDP-43 function.


    Organizational Affiliation

    1] Central European Institute of Technology, Masaryk University, Brno, Czech Republic. [2] Institute of Molecular Biology and Biophysics, Eidgenössische Technische Hochschule Hönggerberg, Zürich, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TAR DNA-BINDING PROTEIN 43
A
174Homo sapiensGene Names: TARDBP (TDP43)
Find proteins for Q13148 (Homo sapiens)
Go to Gene View: TARDBP
Go to UniProtKB:  Q13148
Entity ID: 2
MoleculeChainsLengthOrganism
5'-R(*GP*UP*GP*UP*GP*AP*AP*UP*GP*AP*AP*UP)-3'B12Homo sapiens
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 20 
  • Selection Criteria: LOWEST ENERGY AND RESTRAINT VIOLATION 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-11-13
    Type: Initial release
  • Version 1.1: 2013-11-20
    Type: Database references
  • Version 1.2: 2013-11-27
    Type: Database references
  • Version 1.3: 2013-12-18
    Type: Database references
  • Version 1.4: 2016-05-04
    Type: Atomic model, Other