5IM0

Crystal structure of the RNA recognition motif of mRNA decay regulator AUF1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.204 
  • R-Value Work: 0.170 
  • R-Value Observed: 0.173 

wwPDB Validation   3D Report Full Report


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Literature

Crystal Structure of the N-Terminal RNA Recognition Motif of mRNA Decay Regulator AUF1.

Choi, Y.J.Yoon, J.H.Chang, J.H.

(2016) Biomed Res Int 2016: 3286191-3286191

  • DOI: 10.1155/2016/3286191
  • Primary Citation of Related Structures:  
    5IM0

  • PubMed Abstract: 
  • AU-rich element binding/degradation factor 1 (AUF1) plays a role in destabilizing mRNAs by forming complexes with AU-rich elements (ARE) in the 3'-untranslated regions. Multiple AUF1-ARE complexes regulate the translation of encoded products related to the cell cycle, apoptosis, and inflammation ...

    AU-rich element binding/degradation factor 1 (AUF1) plays a role in destabilizing mRNAs by forming complexes with AU-rich elements (ARE) in the 3'-untranslated regions. Multiple AUF1-ARE complexes regulate the translation of encoded products related to the cell cycle, apoptosis, and inflammation. AUF1 contains two tandem RNA recognition motifs (RRM) and a Gln- (Q-) rich domain in their C-terminal region. To observe how the two RRMs are involved in recognizing ARE, we obtained the AUF1-p37 protein covering the two RRMs. However, only N-terminal RRM (RRM1) was crystallized and its structure was determined at 1.7 Å resolution. It appears that the RRM1 and RRM2 separated before crystallization. To demonstrate which factors affect the separate RRM1-2, we performed limited proteolysis using trypsin. The results indicated that the intact proteins were cleaved by unknown proteases that were associated with them prior to crystallization. In comparison with each of the monomers, the conformations of the β2-β3 loops were highly variable. Furthermore, a comparison with the RRM1-2 structures of HuR and hnRNP A1 revealed that a dimer of RRM1 could be one of the possible conformations of RRM1-2. Our data may provide a guidance for further structural investigations of AUF1 tandem RRM repeat and its mode of ARE binding.


    Organizational Affiliation

    Department of Biology Education, Kyungpook National University, Daegu 41566, Republic of Korea.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Heterogeneous nuclear ribonucleoprotein D0A87Homo sapiensMutation(s): 0 
Gene Names: HNRNPDAUF1HNRPD
UniProt & NIH Common Fund Data Resources
Find proteins for Q14103 (Homo sapiens)
Explore Q14103 
Go to UniProtKB:  Q14103
PHAROS:  Q14103
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Heterogeneous nuclear ribonucleoprotein D0B82Homo sapiensMutation(s): 0 
Gene Names: HNRNPDAUF1HNRPD
UniProt & NIH Common Fund Data Resources
Find proteins for Q14103 (Homo sapiens)
Explore Q14103 
Go to UniProtKB:  Q14103
PHAROS:  Q14103
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
AL-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.204 
  • R-Value Work: 0.170 
  • R-Value Observed: 0.173 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 39.068α = 90
b = 39.411β = 90
c = 93.252γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
AutoSolphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Research Foundation of Korea (NRF)Korea, Republic Of2013R1A1A1061391

Revision History  (Full details and data files)

  • Version 1.0: 2016-08-03
    Type: Initial release