2B6G

RNA recognition by the Vts1 SAM domain

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 1 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history. 


Literature

RNA recognition by the Vts1p SAM domain

Johnson, P.E., Donaldson, L.W.

(2006) Nat Struct Mol Biol 13: 177-178

  • DOI: https://doi.org/10.1038/nsmb1039
  • Primary Citation of Related Structures:  
    2B6G, 2B7G

  • PubMed Abstract: 

    The putative yeast post-transcriptional regulator Vts1p and its related protein Smaug, from Drosophila melanogaster, each use a sterile alpha motif (SAM) domain to bind an RNA hairpin termed the Smaug recognition element (SRE). Here, we present the NMR structures of the Vts1p-SRE complex and the free SRE. Structural highlights include the direct recognition of a guanine base and the formation or stabilization of a base pair in the SRE loop.

    • Organizational Affiliation: 

    Department of Chemistry, York University, 4700 Keele Street, Toronto, Ontario, Canada, M3J 1P3. pjohnson@yorku.ca


Macromolecules

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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Vts1pB [auth A]119Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: Vts1p
UniProt
Find proteins for Q08831 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q08831 
Go to UniProtKB:  Q08831
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ08831
Sequence Annotations
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  • Reference Sequence

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Entity ID: 1
MoleculeChains LengthOrganismImage
5'-R(*GP*GP*AP*GP*GP*CP*UP*CP*UP*GP*GP*CP*AP*GP*CP*UP*UP*UP*C)-3'A [auth B]19N/A
Sequence Annotations
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  • Reference Sequence
Small Molecules
Binding Affinity Annotations 
IDSourceBinding Affinity
RNA PDBBind:  2B6G Kd: 30 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 1 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2006-01-24
    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: 2022-03-09
    Changes: Data collection, Database references, Derived calculations