8WQ3

Crystal structure of the C-terminal RRM domain of an RBP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.185 

Starting Model: in silico
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Literature

Structural basis for RNA recognition by the C-terminal RRM domain of human RBM45.

Chen, X.Wei, Q.Yang, Z.Chen, X.Guo, S.Jiang, M.Wang, M.

(2024) J Biol Chem : 107640-107640

  • DOI: https://doi.org/10.1016/j.jbc.2024.107640
  • Primary Citation of Related Structures:  
    8WQ3, 8WQ5

  • PubMed Abstract: 

    RBM45 is an RNA-binding protein with roles in neural development by regulating RNA splicing. Its dysfunction and aggregation are associated with neurodegenerative diseases such as amyotrophic lateral sclerosis (ALS) and frontotemporal lobar dementia (FTLD). RBM45 harbors three RRM domains that potentially bind RNA. While the recognitions of RNA by its N-terminal tandem RRM domains (RRM1 and RRM2) have been well understood, the RNA-binding property of its C-terminal RRM (RRM3) remains unclear. In this work, we identified that the RRM3 of RBM45 sequence-specifically binds RNA with a GACG sequence, similar but not identical to those recognized by the RRM1 and RRM2. Further, we determined the crystal structure of RBM45 RRM3 in complex with a GACG sequence-containing single-stranded DNA. Our structural results, together with the RNA-binding assays of mutants at key amino acid residues, revealed the molecular mechanism by which RBM45 RRM3 recognizes an RNA sequence. Our finding on the RNA-binding property of the individual RRM module of RBM45 provides the foundation for unraveling the RNA-binding characteristics of full-length RBM45 and for understanding the biological functions of RBM45.


  • Organizational Affiliation

    Institutes of Physical Science and Information Technology, Anhui University, Hefei 230601, Anhui, China; School of Life Sciences, Anhui University, Hefei 230601, Anhui, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
RNA-binding protein 45
A, B, C, D
116Homo sapiensMutation(s): 0 
Gene Names: RBM45DRB1DRBP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q8IUH3 (Homo sapiens)
Explore Q8IUH3 
Go to UniProtKB:  Q8IUH3
PHAROS:  Q8IUH3
GTEx:  ENSG00000155636 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8IUH3
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.185 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 71.261α = 90
b = 74.602β = 90
c = 195.843γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data scaling
HKL-3000data reduction
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other governmentChina2108085MC75

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-21
    Type: Initial release