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PDBsum entry 4dih
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Hydrolase/hydrolase inhibitor/DNA
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PDB id
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4dih
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References listed in PDB file
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Key reference
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Title
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High-Resolution structures of two complexes between thrombin and thrombin-Binding aptamer shed light on the role of cations in the aptamer inhibitory activity.
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Authors
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I.Russo krauss,
A.Merlino,
A.Randazzo,
E.Novellino,
L.Mazzarella,
F.Sica.
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Ref.
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Nucleic Acids Res, 2012,
40,
8119-8128.
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PubMed id
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Abstract
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No abstract given.
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Secondary reference #1
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Title
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Thrombin-Aptamer recognition: a revealed ambiguity.
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Authors
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I.Russo krauss,
A.Merlino,
C.Giancola,
A.Randazzo,
L.Mazzarella,
F.Sica.
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Ref.
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Nucleic Acids Res, 2011,
39,
7858-7867.
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PubMed id
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Secondary reference #2
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Title
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The structure of alpha-Thrombin inhibited by a 15-Mer single-Stranded DNA aptamer.
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Authors
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K.Padmanabhan,
K.P.Padmanabhan,
J.D.Ferrara,
J.E.Sadler,
A.Tulinsky.
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Ref.
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J Biol Chem, 1993,
268,
17651-17654.
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PubMed id
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Secondary reference #3
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Title
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An ambiguous structure of a DNA 15-Mer thrombin complex.
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Authors
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K.Padmanabhan,
A.Tulinsky.
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Ref.
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Acta Crystallogr D Biol Crystallogr, 1996,
52,
272-282.
[DOI no: ]
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PubMed id
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Figure 1.
Fig. 1. Schematic drawings of the X-ray (left) and NMR (right)
structures of the aptamer. "IT loops span wide grooves, TGT spans
narrow groove in X-ray structure and
vice versa
in NMR structure.
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Figure 7.
Fig. 7. Stereoview of the hydrophobic
interaction sites of T3 and TI2 of
the NMR model of the aptamer.
The DNA is shown in thin lines
and thrombin residues, which form
the hydrophobic pockets located in
the fibrinogen exosite at top (in
bold). Heparin binding-site inter-
actions at bottom (primed resi-
dues). Only bases with good
density shown.
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The above figures are
reproduced from the cited reference
with permission from the IUCr
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