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Thrombin-aptamer recognition: a revealed ambiguity.

Russo Krauss I, Merlino A, Giancola C, Randazzo A, Mazzarella L, Sica F
Nucleic Acids Res 39 7858-67 (2011)
Cited: 75 times
EuropePMC logo PMID: 21715374

Abstract

Aptamers are structured oligonucleotides that recognize molecular targets and can function as direct protein inhibitors. The best-known example is the thrombin-binding aptamer, TBA, a single-stranded 15-mer DNA that inhibits the activity of thrombin, the key enzyme of coagulation cascade. TBA folds as a G-quadruplex structure, as proved by its NMR structure. The X-ray structure of the complex between TBA and human α-thrombin was solved at 2.9-Å resolution, but did not provide details of the aptamer conformation and the interactions with the protein molecule. TBA is rapidly processed by nucleases. To improve the properties of TBA, a number of modified analogs have been produced. In particular, a modified TBA containing a 5'-5' polarity inversion site, mTBA, has higher stability and higher affinity toward thrombin with respect to TBA, although it has a lower inhibitory activity. We present the crystal structure of the thrombin-mTBA complex at 2.15-Å resolution; the resulting model eventually provides a clear picture of thrombin-aptamers interaction, and also highlights the structural bases of the different properties of TBA and mTBA. Our findings open the way for a rational design of modified aptamers with improved potency as anticoagulant drugs.

Reviews - 3qlp mentioned but not cited (4)

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Articles - 3qlp mentioned but not cited (6)

  1. High-resolution structures of two complexes between thrombin and thrombin-binding aptamer shed light on the role of cations in the aptamer inhibitory activity. Russo Krauss I, Merlino A, Randazzo A, Novellino E, Mazzarella L, Sica F. Nucleic Acids Res. 40 8119-8128 (2012)
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Reviews citing this publication (9)

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Articles citing this publication (56)

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