Solution structure of a chimeric U2AF2 RRM2 / FUBP1 N-Box

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 500 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation   3D Report Full Report

This is version 1.2 of the entry. See complete history


FUBP1 is a general splicing factor facilitating 3' splice site recognition and splicing of long introns.

Ebersberger, S.Hipp, C.Mulorz, M.M.Buchbender, A.Hubrich, D.Kang, H.S.Martinez-Lumbreras, S.Kristofori, P.Sutandy, F.X.R.Llacsahuanga Allcca, L.Schonfeld, J.Bakisoglu, C.Busch, A.Hanel, H.Tretow, K.Welzel, M.Di Liddo, A.Mockel, M.M.Zarnack, K.Ebersberger, I.Legewie, S.Luck, K.Sattler, M.Konig, J.

(2023) Mol Cell 83: 2653

  • DOI: https://doi.org/10.1016/j.molcel.2023.07.002
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Splicing of pre-mRNAs critically contributes to gene regulation and proteome expansion in eukaryotes, but our understanding of the recognition and pairing of splice sites during spliceosome assembly lacks detail. Here, we identify the multidomain RNA-binding protein FUBP1 as a key splicing factor that binds to a hitherto unknown cis-regulatory motif. By collecting NMR, structural, and in vivo interaction data, we demonstrate that FUBP1 stabilizes U2AF2 and SF1, key components at the 3' splice site, through multivalent binding interfaces located within its disordered regions. Transcriptional profiling and kinetic modeling reveal that FUBP1 is required for efficient splicing of long introns, which is impaired in cancer patients harboring FUBP1 mutations. Notably, FUBP1 interacts with numerous U1 snRNP-associated proteins, suggesting a unique role for FUBP1 in splice site bridging for long introns. We propose a compelling model for 3' splice site recognition of long introns, which represent 80% of all human introns.

  • Organizational Affiliation

    Institute of Molecular Biology (IMB) gGmbH, 55128 Mainz, Germany.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Splicing factor U2AF 65 kDa subunit,Far upstream element-binding protein 1160Homo sapiensMutation(s): 1 
Gene Names: U2AF2U2AF65FUBP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q96AE4 (Homo sapiens)
Explore Q96AE4 
Go to UniProtKB:  Q96AE4
GTEx:  ENSG00000162613 
Find proteins for P26368 (Homo sapiens)
Explore P26368 
Go to UniProtKB:  P26368
PHAROS:  P26368
GTEx:  ENSG00000063244 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP26368Q96AE4
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 500 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
German Research Foundation (DFG)GermanySPP 1935 #273941853
German Research Foundation (DFG)Germanyand SFB 1035 #201302640

Revision History  (Full details and data files)

  • Version 1.0: 2023-07-26
    Type: Initial release
  • Version 1.1: 2023-08-09
    Changes: Database references
  • Version 1.2: 2023-08-16
    Changes: Database references