1yfv
From Proteopedia
| Line 1: | Line 1: | ||
[[Image:1yfv.gif|left|200px]] | [[Image:1yfv.gif|left|200px]] | ||
| - | + | <!-- | |
| - | + | The line below this paragraph, containing "STRUCTURE_1yfv", creates the "Structure Box" on the page. | |
| - | + | You may change the PDB parameter (which sets the PDB file loaded into the applet) | |
| - | + | or the SCENE parameter (which sets the initial scene displayed when the page is loaded), | |
| - | | | + | or leave the SCENE parameter empty for the default display. |
| - | | | + | --> |
| - | + | {{STRUCTURE_1yfv| PDB=1yfv | SCENE= }} | |
| - | + | ||
| - | + | ||
| - | }} | + | |
'''STRUCTURE OF (5'-R(GP*GP*CP*GP*AP*GP*CP*C)-3')2 BY 2-D NMR, 1 STRUCTURE''' | '''STRUCTURE OF (5'-R(GP*GP*CP*GP*AP*GP*CP*C)-3')2 BY 2-D NMR, 1 STRUCTURE''' | ||
| Line 19: | Line 16: | ||
==About this Structure== | ==About this Structure== | ||
| - | + | Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YFV OCA]. | |
==Reference== | ==Reference== | ||
Structure of (rGGCGAGCC)2 in solution from NMR and restrained molecular dynamics., SantaLucia J Jr, Turner DH, Biochemistry. 1993 Nov 30;32(47):12612-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8251479 8251479] | Structure of (rGGCGAGCC)2 in solution from NMR and restrained molecular dynamics., SantaLucia J Jr, Turner DH, Biochemistry. 1993 Nov 30;32(47):12612-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8251479 8251479] | ||
| - | [[Category: Protein complex]] | ||
[[Category: Junior, J Santalucia.]] | [[Category: Junior, J Santalucia.]] | ||
[[Category: Turner, D H.]] | [[Category: Turner, D H.]] | ||
[[Category: 2-d nmr]] | [[Category: 2-d nmr]] | ||
| - | [[Category: | + | [[Category: Anti-parallel rna duplex]] |
| - | [[Category: | + | [[Category: G:a mismatch]] |
| - | [[Category: | + | [[Category: Ribonucleic acid]] |
| - | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 16:16:10 2008'' | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 13:16, 3 May 2008
STRUCTURE OF (5'-R(GP*GP*CP*GP*AP*GP*CP*C)-3')2 BY 2-D NMR, 1 STRUCTURE
Overview
The duplex (rGGCGAGCC)2 contains tandem G x A mismatches--a common motif in the secondary structures of biological RNAs. The three-dimensional structure of (rGGCGAGCC)2 was derived using molecular dynamics and energy minimization with NMR-derived restraints for 78 interproton distances (per strand), 18 hydrogen bonds for the six Watson-Crick G x C pairs, and 26 dihedral angles (per strand). The G x A mismatch structures are similar to those observed in a DNA duplex [Li, Y., Zon, G., & Wilson, W. D. (1991) Proc. Natl. Acad. Sci. U.S.A. 80, 26-30] and an RNA hairpin [Heus, H. A., & Pardi, A. (1991) Science 253, 191-193], with hydrogen bonds from guanine 2-amino and N3 to adenine N7 and 6-amino, respectively. The other G 2-amino and A 6-amino protons are within hydrogen-bonding distance of a phosphate oxygen and 2'-oxygen, respectively. Strong interstrand A-A and G-G stacking is observed between the G x A mismatches. This contrasts with the poor stacking observed between the G x A mismatches and closing G x C base pairs. The stems are basically A-form with all bases in the anti conformation and all nonterminal sugars in the C3'-endo conformation. The structure rationalizes previous thermodynamic, circular dichroism, and imino proton NMR results and suggests tandem G x A mismatches in RNA may provide a contact site for tertiary interactions.
About this Structure
Full crystallographic information is available from OCA.
Reference
Structure of (rGGCGAGCC)2 in solution from NMR and restrained molecular dynamics., SantaLucia J Jr, Turner DH, Biochemistry. 1993 Nov 30;32(47):12612-23. PMID:8251479 Page seeded by OCA on Sat May 3 16:16:10 2008
