1ETF

REV RESPONSE ELEMENT (RRE) RNA COMPLEXED WITH REV PEPTIDE, NMR, MINIMIZED AVERAGE STRUCTURE

• PDB DOI:  https://doi.org/10.2210/pdb1ETF/pdb
• NAKB: 1ETF

• Classification: Viral protein/RNA
• Organism(s): Human immunodeficiency virus 1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1996-08-28 Released: 1997-03-12 
• Deposition Author(s): Battiste, J.L., Mao, H., Rao, N.S., Tan, R., Muhandiram, D.R., Kay, L.E., Frankel, A.D., Willamson, J.R.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Submitted: 1 

Literature

Alpha helix-RNA major groove recognition in an HIV-1 rev peptide-RRE RNA complex.

Battiste, J.L., Mao, H., Rao, N.S., Tan, R., Muhandiram, D.R., Kay, L.E., Frankel, A.D., Williamson, J.R.

(1996) Science 273: 1547-1551

• PubMed: 8703216 
• DOI: https://doi.org/10.1126/science.273.5281.1547
• Primary Citation of Related Structures:  
  1ETF, 1ETG


• PubMed Abstract: 
  

The solution structure of a human immunodeficiency virus type-1 (HIV-1) Rev peptide bound to stem-loop IIB of the Rev response element (RRE) RNA was solved by nuclear magnetic resonance spectroscopy. The Rev peptide has an alpha-helical conformation and binds in the major groove of the RNA near a purine-rich internal loop. Several arginine side chains make base-specific contacts, and an asparagine residue contacts a G.A base pair. The phosphate backbone adjacent to a G.G base pair adopts an unusual structure that allows the peptide to access a widened major groove. The structure formed by the two purine-purine base pairs of the RRE creates a distinctive binding pocket that the peptide can use for specific recognition.

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Related Citations: 

• Assignment and Modeling of the Rev Response Element RNA Bound to a Rev Peptide Using 13C-Heteronuclear NMR
  Battiste, J.L., Tan, R., Frankel, A.D., Williamson, J.R.
  (1995) J Biomol NMR 6: 375

• Binding of an HIV Rev Peptide to Rev Responsive Element RNA Induces Formation of Purine-Purine Base Pairs
  Battiste, J.L., Tan, R., Frankel, A.D., Williamson, J.R.
  (1994) Biochemistry 33: 2741

• RNA Recognition by an Isolated Alpha Helix
  Tan, R., Chen, L., Buettner, J.A., Hudson, D., Frankel, A.D.
  (1993) Cell 73: 1031

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Organizational Affiliation: 

Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 14.04 kDa 
• Atom Count: 945 
• Modelled Residue Count: 57 
• Deposited Residue Count: 57 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
REV PEPTIDE	B	23	Human immunodeficiency virus 1	Mutation(s): 0
UniProt
Find proteins for P05866 (Human immunodeficiency virus type 1 group M subtype B (isolate WMJ22)) Explore P05866  Go to UniProtKB:  P05866

Entity ID: 1
Molecule	Chains	Length	Organism	Image
REV RESPONSE ELEMENT RNA	A	34	N/A

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Submitted: 1 

Structure Validation

Entry History 

Deposition Data

• Released Date: 1997-03-12 
Deposition Author(s): Battiste, J.L., Mao, H., Rao, N.S., Tan, R., Muhandiram, D.R., Kay, L.E., Frankel, A.D., Willamson, J.R.

Revision History  

• Version 1.0: 1997-03-12
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-02-16
  Changes: Database references, Derived calculations, Other