4WKR

LaRP7 wrapping up the 3' hairpin of 7SK non-coding RNA (302-332)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.223 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

Structural insight into the mechanism of stabilization of the 7SK small nuclear RNA by LARP7.

Uchikawa, E., Natchiar, K.S., Han, X., Proux, F., Roblin, P., Zhang, E., Durand, A., Klaholz, B.P., Dock-Bregeon, A.C.

(2015) Nucleic Acids Res 43: 3373-3388

  • DOI: 10.1093/nar/gkv173
  • Primary Citation of Related Structures:  
    4WKR

  • PubMed Abstract: 

    • The non-coding RNA 7SK is the scaffold for a small nuclear ribonucleoprotein (7SKsnRNP) which regulates the function of the positive transcription elongation factor P-TEFb in the control of RNA polymerase II elongation in metazoans. The La-related protein LARP7 is a component of the 7SKsnRNP required for stability and function of the RNA ...

    The non-coding RNA 7SK is the scaffold for a small nuclear ribonucleoprotein (7SKsnRNP) which regulates the function of the positive transcription elongation factor P-TEFb in the control of RNA polymerase II elongation in metazoans. The La-related protein LARP7 is a component of the 7SKsnRNP required for stability and function of the RNA. To address the function of LARP7 we determined the crystal structure of its La module, which binds a stretch of uridines at the 3'-end of 7SK. The structure shows that the penultimate uridine is tethered by the two domains, the La-motif and the RNA-recognition motif (RRM1), and reveals that the RRM1 is significantly smaller and more exposed than in the La protein. Sequence analysis suggests that this impacts interaction with 7SK. Binding assays, footprinting and small-angle scattering experiments show that a second RRM domain located at the C-terminus binds the apical loop of the 3' hairpin of 7SK, while the N-terminal domains bind at its foot. Our results suggest that LARP7 uses both its N- and C-terminal domains to stabilize 7SK in a closed structure, which forms by joining conserved sequences at the 5'-end with the foot of the 3' hairpin and has thus functional implications.

    Organizational Affiliation: 

    Department of functional genomics, Institut de Biologie de l'Ecole Normale Supérieure (IBENS), 75005 Paris, France CNRS UMR 8197, 75005 Paris, France INSERM U1024, 75005 Paris, France dock@biologie.ens.fr.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
La-related protein 7A, B208Homo sapiensMutation(s): 0 
Gene Names: LARP7, HDCMA18P
UniProt & NIH Common Fund Data Resources
Find proteins for Q4G0J3 (Homo sapiens)
Explore Q4G0J3 
Go to UniProtKB:  Q4G0J3
PHAROS:  Q4G0J3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4G0J3
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsLengthOrganismImage
7SK GGHP4 (300-332)C, D31Homo sapiens
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.223 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 163.452α = 90
b = 33.5β = 128.99
c = 119.08γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
iMOSFLMdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-03-18
    Type: Initial release
  • Version 1.1: 2015-04-15
    Changes: Database references