2LA5

RNA Duplex-Quadruplex Junction Complex with FMRP RGG peptide


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure-function studies of FMRP RGG peptide recognition of an RNA duplex-quadruplex junction.

Phan, A.T.Kuryavyi, V.Darnell, J.C.Serganov, A.Majumdar, A.Ilin, S.Raslin, T.Polonskaia, A.Chen, C.Clain, D.Darnell, R.B.Patel, D.J.

(2011) Nat Struct Mol Biol 18: 796-804

  • DOI: 10.1038/nsmb.2064
  • Primary Citation of Related Structures:  
    2LA5

  • PubMed Abstract: 
  • We have determined the solution structure of the complex between an arginine-glycine-rich RGG peptide from the human fragile X mental retardation protein (FMRP) and an in vitro-selected guanine-rich (G-rich) sc1 RNA. The bound RNA forms a newly discovered G-quadruplex separated from the flanking duplex stem by a mixed junctional tetrad ...

    We have determined the solution structure of the complex between an arginine-glycine-rich RGG peptide from the human fragile X mental retardation protein (FMRP) and an in vitro-selected guanine-rich (G-rich) sc1 RNA. The bound RNA forms a newly discovered G-quadruplex separated from the flanking duplex stem by a mixed junctional tetrad. The RGG peptide is positioned along the major groove of the RNA duplex, with the G-quadruplex forcing a sharp turn of R(10)GGGGR(15) at the duplex-quadruplex junction. Arg10 and Arg15 form cross-strand specificity-determining intermolecular hydrogen bonds with the major-groove edges of guanines of adjacent Watson-Crick G•C pairs. Filter-binding assays on RNA and peptide mutations identify and validate contributions of peptide-RNA intermolecular contacts and shape complementarity to molecular recognition. These findings on FMRP RGG domain recognition by a combination of G-quadruplex and surrounding RNA sequences have implications for the recognition of other genomic G-rich RNAs.


    Organizational Affiliation

    Structural Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, USA. phantuan@ntu.edu.sg



Macromolecules

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Fragile X mental retardation 1 proteinB17Homo sapiensMutation(s): 0 
Gene Names: FMR1
UniProt & NIH Common Fund Data Resources
Find proteins for Q06787 (Homo sapiens)
Explore Q06787 
Go to UniProtKB:  Q06787
PHAROS:  Q06787
GTEx:  ENSG00000102081 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ06787
Protein Feature View
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  • Reference Sequence
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Entity ID: 1
MoleculeChainsLengthOrganismImage
RNA (36-MER)A 36N/A
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 
  • OLDERADO: 2LA5 Olderado

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-06-08
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2011-07-20
    Changes: Database references