This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
1nyb
From Proteopedia
Revision as of 13:32, 28 September 2014 by OCA (Talk | contribs)
1nyb is a 2 chain structure with sequence from Enterobacteria phage phi21. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
We determined the solution structure of a 22-amino-acid peptide from the amino-terminal domain of the bacteriophage phi21 N protein in complex with its cognate 24-mer boxB RNA hairpin using heteronuclear magnetic resonance spectroscopy. The N peptide binds as an alpha-helix and interacts predominately with the major groove side of the 5' half of the boxB RNA stem-loop. This binding interface is defined by surface complementarity of polar and nonpolar interactions, and little sequence-specific recognition. The phi21 boxB loop (CUAACC) has hydrogen bond and backbone torsions typical of the "U-turn" motif, as well as base stacking of the last 4 nt, and a hydrogen bonded C:C pair closing the loop. The exposed face of the phi21 boxB loop, in complex with the N peptide, is strikingly similar to the GNRA tetraloop-like folds of the related lambda and P22 bacteriophage N peptide-boxB RNA complexes. The N peptide-boxB complexes of the various phage, while individually distinct, provide similar structural features for interactions with the Escherichia coli host factors to enable antitermination.
Structural mimicry in the phage phi21 N peptide-boxB RNA complex.,Cilley CD, Williamson JR RNA. 2003 Jun;9(6):663-76. PMID:12756325[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
↑ Cilley CD, Williamson JR. Structural mimicry in the phage phi21 N peptide-boxB RNA complex. RNA. 2003 Jun;9(6):663-76. PMID:12756325
