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Three-dimensional solution structure of the thrombin-binding DNA aptamer d(GGTTGGTGTGGTTGG).

Abstract：

:The DNA oligonucleotide d(GGTTGGTGTGGTTGG) (thrombin aptamer) binds to thrombin and inhibits its enzymatic activity in the chain of reactions that lead to blood clotting. Two-dimensional 1H NMR studies indicate that the oligonucleotide forms a folded structure in solution, composed of two guanine quartets connected by two T-T loops spanning the narrow grooves at one end and a T-G-T loop spanning a wide groove at the other end. We present the assignment strategy used, methods for the structure determination, and the refined three-dimensional structure of the thrombin aptamer. The initial structures were generated by metric matrix distance geometry using distance and dihedral bond angle constraints from NOE and coupling constants, respectively, and refined by restrained molecular dynamics and direct NOE refinement. Knowledge of the three-dimensional structure of this thrombin aptamer may be relevant for the design of improved thrombin-inhibiting anti-coagulants with similar structural motifs.

journal_name

J Mol Biol

journal_title

Journal of molecular biology

authors

Schultze P,Macaya RF,Feigon J

doi

10.1006/jmbi.1994.1105

subject

Has Abstract

pub_date

1994-02-04 00:00:00

pages

1532-47

issue

5

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(84)71105-3

journal_volume

235

pub_type

杂志文章

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