1I8F

THE CRYSTAL STRUCTURE OF A HEPTAMERIC ARCHAEAL SM PROTEIN: IMPLICATIONS FOR THE EUKARYOTIC SNRNP CORE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.235 

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This is version 1.4 of the entry. See complete history


Literature

The crystal structure of a heptameric archaeal Sm protein: Implications for the eukaryotic snRNP core.

Mura, C.Cascio, D.Sawaya, M.R.Eisenberg, D.S.

(2001) Proc Natl Acad Sci U S A 98: 5532-5537

  • DOI: https://doi.org/10.1073/pnas.091102298
  • Primary Citation of Related Structures:  
    1I8F

  • PubMed Abstract: 

    Sm proteins form the core of small nuclear ribonucleoprotein particles (snRNPs), making them key components of several mRNA-processing assemblies, including the spliceosome. We report the 1.75-A crystal structure of SmAP, an Sm-like archaeal protein that forms a heptameric ring perforated by a cationic pore. In addition to providing direct evidence for such an assembly in eukaryotic snRNPs, this structure (i) shows that SmAP homodimers are structurally similar to human Sm heterodimers, (ii) supports a gene duplication model of Sm protein evolution, and (iii) offers a model of SmAP bound to single-stranded RNA (ssRNA) that explains Sm binding-site specificity. The pronounced electrostatic asymmetry of the SmAP surface imparts directionality to putative SmAP-RNA interactions.


  • Organizational Affiliation

    University of California at Los Angeles-Department of Energy Laboratory of Structural Biology and Molecular Medicine, 201 Boyer Hall/Molecular Biology Institute, Box 951570, Los Angeles, CA 90095-1570, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
PUTATIVE SNRNP SM-LIKE PROTEIN
A, B, C, D, E
A, B, C, D, E, F, G
81Pyrobaculum aerophilumMutation(s): 0 
UniProt
Find proteins for Q8ZYG5 (Pyrobaculum aerophilum (strain ATCC 51768 / DSM 7523 / JCM 9630 / CIP 104966 / NBRC 100827 / IM2))
Explore Q8ZYG5 
Go to UniProtKB:  Q8ZYG5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8ZYG5
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.235 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 100.261α = 90
b = 95.738β = 92.69
c = 62.157γ = 90
Software Package:
Software NamePurpose
MLPHAREphasing
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2001-05-16
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 1.3: 2021-07-21
    Changes: Data collection, Derived calculations, Refinement description
  • Version 1.4: 2024-02-07
    Changes: Data collection, Database references