2VOP

Crystal structure of N-terminal domains of Human La protein complexed with RNA oligomer AUUUU

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.261 
  • R-Value Observed: 0.261 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Structural Analysis Reveals Conformational Plasticity in the Recognition of RNA 3' Ends by the Human La Protein.

Kotik-Kogan, O., Valentine, E.R., Sanfelice, D., Conte, M.R., Curry, S.

(2008) Structure 16: 852

  • DOI: 10.1016/j.str.2008.02.021
  • Primary Citation of Related Structures:  
    2VOD, 2VON, 2VOO, 2VOP

  • PubMed Abstract: 

    • The eukaryotic La protein recognizes the 3' poly(U) sequences of nascent RNA polymerase III transcripts to assist folding and maturation. The 3' ends of such RNAs are bound by the N-terminal domain of La (LaNTD). We have solved the crystal structures of four LaNTD:RNA complexes, each containing a different single-stranded RNA oligomer, and compared them to the structure of a previously published LaNTD:RNA complex containing partially duplex RNA ...

    The eukaryotic La protein recognizes the 3' poly(U) sequences of nascent RNA polymerase III transcripts to assist folding and maturation. The 3' ends of such RNAs are bound by the N-terminal domain of La (LaNTD). We have solved the crystal structures of four LaNTD:RNA complexes, each containing a different single-stranded RNA oligomer, and compared them to the structure of a previously published LaNTD:RNA complex containing partially duplex RNA. The presence of purely single-stranded RNA in the binding pocket at the interface between the La motif and RRM domains allows significantly closer contact with the 3' end of the RNA. Comparison of the different LaNTD:RNA complexes identifies a conserved set of interactions with the last two nucleotides at the 3' end of the RNA ligand that are key to binding. Strikingly, we also observe two alternative conformations of bound ssRNA, indicative of an unexpected degree of plasticity in the modes of RNA binding.

    Organizational Affiliation: 

    Biophysics Section, Blackett Laboratory, Imperial College, Exhibition Road, London, United Kingdom.



Macromolecules

Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
LUPUS LA PROTEINA193Homo sapiensMutation(s): 0 
Gene Names: SSB
UniProt & NIH Common Fund Data Resources
Find proteins for P05455 (Homo sapiens)
Explore P05455 
Go to UniProtKB:  P05455
PHAROS:  P05455
GTEx:  ENSG00000138385
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    5'-R(*AP*UP*UP*UP*UP)-3'B5Homo sapiens
    Protein Feature View
    Expand
    • Reference Sequence
    Small Molecules
    Ligands 1 Unique
    IDChainsName / Formula / InChI Key2D Diagram3D Interactions
    SO4
    Query on SO4
    Download Ideal Coordinates CCD File 
    		 C [auth A], D [auth A]SULFATE ION
    O4 S
    QAOWNCQODCNURD-UHFFFAOYSA-L    		 Ligand Interaction
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.80 Å
    • R-Value Free: 0.290 
    • R-Value Work: 0.261 
    • R-Value Observed: 0.261 
    • Space Group: C 2 2 2
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 96.07α = 90
    b = 116.69β = 90
    c = 63.51γ = 90
    Software Package:
    Software NamePurpose
    CNSrefinement
    MOSFLMdata reduction
    SCALEdata scaling
    PHASERphasing

    Structure Validation

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    View more in-depth experimental data

    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2008-05-06
      Type: Initial release
    • Version 1.1: 2011-05-08
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance