1al5
From Proteopedia
| Line 1: | Line 1: | ||
[[Image:1al5.jpg|left|200px]] | [[Image:1al5.jpg|left|200px]] | ||
| - | + | <!-- | |
| - | + | The line below this paragraph, containing "STRUCTURE_1al5", 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_1al5| PDB=1al5 | SCENE= }} | |
| - | + | ||
| - | + | ||
| - | }} | + | |
'''A-TRACT RNA DODECAMER, NMR, 12 STRUCTURES''' | '''A-TRACT RNA DODECAMER, NMR, 12 STRUCTURES''' | ||
| 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=1AL5 OCA]. | |
==Reference== | ==Reference== | ||
Conformational properties and thermodynamics of the RNA duplex r(CGCAAAUUUGCG)2: comparison with the DNA analogue d(CGCAAATTTGCG)2., Conte MR, Conn GL, Brown T, Lane AN, Nucleic Acids Res. 1997 Jul 1;25(13):2627-34. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9185574 9185574] | Conformational properties and thermodynamics of the RNA duplex r(CGCAAAUUUGCG)2: comparison with the DNA analogue d(CGCAAATTTGCG)2., Conte MR, Conn GL, Brown T, Lane AN, Nucleic Acids Res. 1997 Jul 1;25(13):2627-34. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9185574 9185574] | ||
| - | [[Category: Protein complex]] | ||
[[Category: Brown, T.]] | [[Category: Brown, T.]] | ||
[[Category: Conn, G L.]] | [[Category: Conn, G L.]] | ||
[[Category: Conte, M R.]] | [[Category: Conte, M R.]] | ||
[[Category: Lane, A N.]] | [[Category: Lane, A N.]] | ||
| - | [[Category: | + | [[Category: Ribonucleic acid]] |
| - | [[Category: | + | [[Category: Rna duplex]] |
| - | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 10:24:43 2008'' | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 07:24, 2 May 2008
A-TRACT RNA DODECAMER, NMR, 12 STRUCTURES
Overview
The thermodynamic stability of nine dodecamers (four DNA and five RNA) of the same base composition has been compared by UV-melting. TheDeltaG of stabilisation were in the order: r(GACUGAUCAGUC)2>r(CGCAAATTTGCG)2 approximately r(CGCAUAUAUGCG)2>d(CGCAAATTTGCG)2 approximately r(CGCAAAUUUGCG)2>d(CGCATATATGCG)2 approximately d(GACTGATCAGTC)2>r(CGCUUUAAAGCG)2 approximately d(CGCTTTAAAGCG)2. Compared with the mixed sequences, both r(AAAUUU) and r(UUUAAA) are greatly destablising in RNA, whereas in DNA, d(TTTAAA) is destabilising but d(AAATTT) is stabilising, which has been attributed to the formation of a special B'structure involving large propeller twists of the A-T base pairs. The solution structure of the RNA dodecamer r(CGCAAAUUUGCG)2has been determined using NMR and restrained molecular dynamics calculations to assess the conformational reasons for its stability in comparison with d(CGCAAATTTGCG)2. The structures refined to a mean pairwise r.m.s.d. of 0.89+/-0.29 A. The nucleotide conformations are typical of the A family of structures. However, although the helix axis displacement is approximately 4.6 A into the major groove, the rise (3.0 A) and base inclination ( approximately 6 degrees ) are different from standard A form RNA. The extensive base-stacking found in the AAATTT tract of the DNA homologue that is largely responsible for the higher thermodynamic stability of the DNA duplex is reduced in the RNA structure, which may account for its low relative stability.
About this Structure
Full crystallographic information is available from OCA.
Reference
Conformational properties and thermodynamics of the RNA duplex r(CGCAAAUUUGCG)2: comparison with the DNA analogue d(CGCAAATTTGCG)2., Conte MR, Conn GL, Brown T, Lane AN, Nucleic Acids Res. 1997 Jul 1;25(13):2627-34. PMID:9185574 Page seeded by OCA on Fri May 2 10:24:43 2008
