2FY1

A dual mode of RNA recognition by the RBMY protein


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 30 
  • Conformers Submitted: 17 
  • Selection Criteria: structures with the least restraint violations 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The testis-specific human protein RBMY recognizes RNA through a novel mode of interaction.

Skrisovska, L.Bourgeois, C.F.Stefl, R.Grellscheid, S.N.Kister, L.Wenter, P.Elliott, D.J.Stevenin, J.Allain, F.H.

(2007) EMBO Rep 8: 372-379

  • DOI: 10.1038/sj.embor.7400910
  • Primary Citation of Related Structures:  
    2FY1

  • PubMed Abstract: 
  • The RBMY (RNA-binding motif gene on Y chromosome) protein encoded by the human Y chromosome is important for normal sperm development. Although its precise molecular RNA targets are unknown at present, it is suggested that human RBMY (hRBMY) particip ...

    The RBMY (RNA-binding motif gene on Y chromosome) protein encoded by the human Y chromosome is important for normal sperm development. Although its precise molecular RNA targets are unknown at present, it is suggested that human RBMY (hRBMY) participates in splicing in the testis. Using systematic evolution of ligands by exponential enrichment, we found that RNA stem-loops capped by a C(A)/(U)CAA pentaloop are high-affinity binding targets for hRBMY. Subsequent nuclear magnetic resonance structural determination of the hRBMY RNA recognition motif (RRM) in complex with a high-affinity target showed two distinct modes of RNA recognition. First, the RRM beta-sheet surface binds to the RNA loop in a sequence-specific fashion. Second, the beta2-beta3 loop of the hRBMY inserts into the major groove of the RNA stem. The first binding mode might be conserved in the paralogous protein heterogeneous nuclear RNP G, whereas the second mode of binding is found only in hRBMY. This structural difference could be at the origin of the function of RBMY in spermatogenesis.


    Organizational Affiliation

    Institute of Molecular Biology and Biophysics, ETH Zurich, Swiss Federal Institute of Technology, 8093 Zurich, Switzerland.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
RNA-binding motif protein, Y chromosome, family 1 member A1A116Homo sapiensMutation(s): 0 
Gene Names: RBMY1A1RBM1RBM2YRRM1YRRM2
Find proteins for P0DJD3 (Homo sapiens)
Explore P0DJD3 
Go to UniProtKB:  P0DJD3
NIH Common Fund Data Resources
PHAROS  P0DJD3
Protein Feature View
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  • Reference Sequence
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(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsLengthOrganismImage
S1A stem-loop RNAB21synthetic construct
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 30 
  • Conformers Submitted: 17 
  • Selection Criteria: structures with the least restraint violations 
  • OLDERADO: 2FY1 Olderado

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-02-06
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2019-03-06
    Changes: Data collection, Database references, Derived calculations, Source and taxonomy