1u01
From Proteopedia
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| - | [[Image:1u01.gif|left|200px]] | + | [[Image:1u01.gif|left|200px]] |
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| - | '''High resolution NMR structure of 5-d(GCGT*GCG)-3/5-d(CGCACGC)-3 (T*represents a cyclohexenyl nucleotide)''' | + | {{Structure |
| + | |PDB= 1u01 |SIZE=350|CAPTION= <scene name='initialview01'>1u01</scene> | ||
| + | |SITE= | ||
| + | |LIGAND= | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
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| + | '''High resolution NMR structure of 5-d(GCGT*GCG)-3/5-d(CGCACGC)-3 (T*represents a cyclohexenyl nucleotide)''' | ||
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==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 1U01 is a [ | + | 1U01 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U01 OCA]. |
==Reference== | ==Reference== | ||
| - | Cyclohexenyl nucleic acids: conformationally flexible oligonucleotides., Nauwelaerts K, Lescrinier E, Sclep G, Herdewijn P, Nucleic Acids Res. 2005 Apr 29;33(8):2452-63. Print 2005. PMID:[http:// | + | Cyclohexenyl nucleic acids: conformationally flexible oligonucleotides., Nauwelaerts K, Lescrinier E, Sclep G, Herdewijn P, Nucleic Acids Res. 2005 Apr 29;33(8):2452-63. Print 2005. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15863723 15863723] |
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Herdewijn, P.]] | [[Category: Herdewijn, P.]] | ||
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[[Category: rna mimic]] | [[Category: rna mimic]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 14:25:31 2008'' |
Revision as of 12:25, 20 March 2008
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High resolution NMR structure of 5-d(GCGT*GCG)-3/5-d(CGCACGC)-3 (T*represents a cyclohexenyl nucleotide)
Overview
Cyclohexenyl nucleic acid (CeNA) is a nucleic acid mimic, where the (deoxy)ribose sugar has been replaced by cyclohexenyl moieties. In order to study the conformation of cyclohexenyl nucleosides by NMR, the HexRot program was developed to calculate conformations from scalar coupling constants of cyclohexenyl compounds, analogous to the methods applied for (deoxy)ribose nucleosides. The conformational equilibria and the values of the thermodynamic parameters are very similar between a cyclohexenyl nucleoside [energy difference between 2H3 (N-type) and 2H3 (S-type) is 1.8 kJ/mol and equilibrium occurs via the eastern hemisphere with a barrier of 10.9 kJ/mol] and a natural ribose nucleoside (energy difference between N-type and S-type is 2 kJ/mol and equilibrium occurs via the eastern hemisphere with a barrier of 4-20 kJ/mol). The flexibility of the cyclohexenyl nucleoside was demonstrated by the fast equilibrium between two conformational states that was observed in a CeNA-U monomer, combined with the 2H3 conformation of the cyclohexene moiety when incorporated into a Dickerson dodecamer and the 2H3 conformation when incorporated in a d(5'-GCGT*GCG-3')/d(5'-CGCACGC-3') duplex, as determined by the NMR spectroscopy. This represents the first example of a synthetic nucleoside that adopts different conformations when incorporated in different double-stranded DNA sequences.
About this Structure
1U01 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Cyclohexenyl nucleic acids: conformationally flexible oligonucleotides., Nauwelaerts K, Lescrinier E, Sclep G, Herdewijn P, Nucleic Acids Res. 2005 Apr 29;33(8):2452-63. Print 2005. PMID:15863723
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