1FJE

SOLUTION STRUCTURE OF NUCLEOLIN RBD12 IN COMPLEX WITH SNRE RNA

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 40 
  • Conformers Submitted: 19 
  • Selection Criteria: all calculated structures submitted 

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


Literature

Molecular basis of sequence-specific recognition of pre-ribosomal RNA by nucleolin.

Allain, F.H., Bouvet, P., Dieckmann, T., Feigon, J.

(2000) EMBO J 19: 6870-6881

  • DOI: 10.1093/emboj/19.24.6870
  • Primary Citation of Related Structures:  
    1FJE

  • PubMed Abstract: 

    • The structure of the 28 kDa complex of the first two RNA binding domains (RBDs) of nucleolin (RBD12) with an RNA stem-loop that includes the nucleolin recognition element UCCCGA in the loop was determined by NMR spectroscopy. The structure of nucleolin RBD12 with the nucleolin recognition element (NRE) reveals that the two RBDs bind on opposite sides of the RNA loop, forming a molecular clamp that brings the 5' and 3' ends of the recognition sequence close together and stabilizing the stem-loop ...

    The structure of the 28 kDa complex of the first two RNA binding domains (RBDs) of nucleolin (RBD12) with an RNA stem-loop that includes the nucleolin recognition element UCCCGA in the loop was determined by NMR spectroscopy. The structure of nucleolin RBD12 with the nucleolin recognition element (NRE) reveals that the two RBDs bind on opposite sides of the RNA loop, forming a molecular clamp that brings the 5' and 3' ends of the recognition sequence close together and stabilizing the stem-loop. The specific interactions observed in the structure explain the sequence specificity for the NRE sequence. Binding studies of mutant proteins and analysis of conserved residues support the proposed interactions. The mode of interaction of the protein with the RNA and the location of the putative NRE sites suggest that nucleolin may function as an RNA chaperone to prevent improper folding of the nascent pre-rRNA.

    Related Citations: 
    • Solution structure of the two N-terminal RNA-binding domains of Nucleolin and NMR study of the interaction with its RNA target
      Allain, F.H.T., Gilbert, D.E., Bouvet, P., Feigon, J.
      (2000) J Mol Biol 303: 227
    Organizational Affiliation: 

    Department of Chemistry and Biochemistry, 405 Hilgard Avenue, University of California, Los Angeles, CA 90095-1569, USA.



Macromolecules

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
NUCLEOLIN RBD12B175Mesocricetus auratusMutation(s): 0 
Gene Names: NCL
UniProt
Find proteins for P08199 (Mesocricetus auratus)
Explore P08199 
Go to UniProtKB:  P08199
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08199
Protein Feature View
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  • Reference Sequence
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Entity ID: 1
MoleculeChainsLengthOrganismImage
SNRE RNAA 22N/A
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 40 
  • Conformers Submitted: 19 
  • Selection Criteria: all calculated structures submitted 
  • OLDERADO: 1FJE Olderado

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2001-01-03
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2022-02-23
    Changes: Database references, Derived calculations