139d
From Proteopedia
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[[Image:139d.jpg|left|200px]] | [[Image:139d.jpg|left|200px]] | ||
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| - | + | {{STRUCTURE_139d| PDB=139d | SCENE= }} | |
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'''SOLUTION STRUCTURE OF A PARALLEL-STRANDED G-QUADRUPLEX DNA''' | '''SOLUTION STRUCTURE OF A PARALLEL-STRANDED G-QUADRUPLEX DNA''' | ||
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==About this Structure== | ==About this Structure== | ||
| - | + | Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=139D OCA]. | |
==Reference== | ==Reference== | ||
Solution structure of a parallel-stranded G-quadruplex DNA., Wang Y, Patel DJ, J Mol Biol. 1993 Dec 20;234(4):1171-83. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8263919 8263919] | Solution structure of a parallel-stranded G-quadruplex DNA., Wang Y, Patel DJ, J Mol Biol. 1993 Dec 20;234(4):1171-83. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8263919 8263919] | ||
| - | [[Category: Protein complex]] | ||
[[Category: Patel, D J.]] | [[Category: Patel, D J.]] | ||
[[Category: Wang, Y.]] | [[Category: Wang, Y.]] | ||
| - | [[Category: | + | [[Category: Anti glycosidic torsion angle]] |
| - | [[Category: | + | [[Category: Dna]] |
| - | [[Category: | + | [[Category: G-quadruplex]] |
| - | [[Category: | + | [[Category: Nmr]] |
| - | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 09:29:28 2008'' | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 06:29, 2 May 2008
SOLUTION STRUCTURE OF A PARALLEL-STRANDED G-QUADRUPLEX DNA
Overview
This paper reports on the solution structure of a parallel-stranded G-quadruplex formed by the Tetrahymena telomeric sequence d(T-T-G-G-G-G-T) whose NMR parameters in potassium cation containing solution were previously published from our laboratory. The structure was determined by combining a quantitative analysis of the NMR data with molecular dynamics calculations including relaxation matrix refinement. The combined NMR-computational approach yielded a set of seven distance-refined structures with pairwise RMSDs ranging from 0.66 to 1.30 A for the central G-G-G-G tetranucleotide segment. Four of the seven structures were refined further using complete relaxation-matrix calculations to yield solution structures with pairwise RMSDs ranging from 0.64 to 1.04 A for the same tetranucleotide segment. The R-factors also decreased on proceeding from the distance-refined to relaxation matrix-refined structures. The four strands of the G-quadruplex are aligned in parallel and are related by a 4-fold symmetry axis coincident with the helix axis. Individual guanines from each strand form planar G.G.G.G tetrad arrangements with each tetrad stabilized by eight hydrogen bonds involving the Watson-Crick and Hoogsteen edges of the guanine bases. All guanines adopt anti glycosidic torsion angles and S type sugar puckers in this right-handed parallel-stranded G-quadruplex structure. The four G.G.G.G tetrad planes stack on each other with minimal overlap of adjacent guanine base planes within individual strands. The thymine residues are under-defined in the solution structure of the d(T-T-G-G-G-G-T) G-quadruplex and sample amongst multiple conformations in solution.
About this Structure
Full crystallographic information is available from OCA.
Reference
Solution structure of a parallel-stranded G-quadruplex DNA., Wang Y, Patel DJ, J Mol Biol. 1993 Dec 20;234(4):1171-83. PMID:8263919 Page seeded by OCA on Fri May 2 09:29:28 2008
