Biological Assembly 1  

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Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 13562.95 
• Atom Count: 904 
• Residue Count: 53 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

2LA5

RNA Duplex-Quadruplex Junction Complex with FMRP RGG peptide

• DOI: 10.2210/pdb2LA5/pdb
• BMRB: 17504
• NDB: 2LA5

• Classification: RNA Binding Protein/RNA
• Organism(s): Homo sapiens


• Deposited: 2011-03-03 Released: 2011-06-08 
• Deposition Author(s): Phan, A., Kuryavyi, V., Darnell, J., Serganov, A., Majumdar, A., Ilin, S., Darnell, R., Patel, D.

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Experimental Data Snapshot

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

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

• PubMed: 21642970 
• DOI: 10.1038/nsmb.2064


• 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. 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.

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Organizational Affiliation: 

Structural Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Fragile X mental retardation 1 protein	B	17	Homo sapiens	Mutation(s): 0  Gene Names: FMR1
Find proteins for Q06787 (Homo sapiens) Go to Gene View: FMR1 Go to UniProtKB:  Q06787

Entity ID: 1
Molecule	Chains	Length	Organism
RNA (36-MER)	A	36	N/A

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

Entry History 

Deposition Data

• Deposited Date: 2011-03-03 
• Released Date: 2011-06-08 
• Deposition Author(s): Phan, A., Kuryavyi, V., Darnell, J., Serganov, A., Majumdar, A., Ilin, S., Darnell, R., Patel, D.

Revision History 

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