148D
THREE-DIMENSIONAL SOLUTION STRUCTURE OF THE THROMBIN BINDING DNA APTAMER D(GGTTGGTGTGGTTGG)
Summary for 148D
| Entry DOI | 10.2210/pdb148d/pdb |
| Descriptor | DNA (5'-D(*GP*GP*TP*TP*GP*GP*TP*GP*TP*GP*GP*TP*TP*GP*G)-3') (1 entity in total) |
| Functional Keywords | dna |
| Total number of polymer chains | 1 |
| Total formula weight | 4743.05 |
| Authors | Schultze, P.,Macaya, R.F.,Feigon, J. (deposition date: 1993-11-15, release date: 1994-04-30, Last modification date: 2024-05-22) |
| Primary citation | Schultze, P.,Macaya, R.F.,Feigon, J. Three-dimensional solution structure of the thrombin-binding DNA aptamer d(GGTTGGTGTGGTTGG). J.Mol.Biol., 235:1532-1547, 1994 Cited by PubMed 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. PubMed: 8107090DOI: 10.1006/jmbi.1994.1105 PDB entries with the same primary citation |
| Experimental method | SOLUTION NMR |
Structure validation
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