5EW2: Human Thrombin Sandwiched Between Two Dna Aptamers: Hd22 And Hd1- Deltat12

Citation:
Abstract
Aptamers directed against human thrombin can selectively bind to two different exosites on the protein surface. The simultaneous use of two DNA aptamers, HD1 and HD22, directed to exosite I and exosite II respectively, is a very powerful approach to exploit their combined affinity. Indeed, strategies to link HD1 and HD22 together have been proposed in order to create a single bivalent molecule with an enhanced ability to control thrombin activity. In this work, the crystal structures of two ternary complexes, in which thrombin is sandwiched between two DNA aptamers, are presented and discussed. The structures shed light on the cross talk between the two exosites. The through-bond effects are particularly evident at exosite II, with net consequences on the HD22 structure. Moreover, thermodynamic data on the binding of the two aptamers are also reported and analyzed.
PDB ID: 5EW2Download
MMDB ID: 145209
PDB Deposition Date: 2015/11/20
Updated in MMDB: 2016/12
Experimental Method:
x-ray diffraction
Resolution: 3.59  Å
Source Organism:
Similar Structures:
Biological Unit for 5EW2: tetrameric; determined by software (PISA)
Molecular Components in 5EW2
Label Count Molecule
Proteins (2 molecules)
1
Thrombin Light Chain(Gene symbol: F2)
Molecule annotation
1
Thrombin Heavy Chain(Gene symbol: F2)
Molecule annotation
Nucleotides(2 molecules)
1
Hd22 (27mer)
Molecule annotation
1
Hd1-deltat12
Molecule annotation
Chemicals (5 molecules)
1
1
2
1
3
3
* Click molecule labels to explore molecular sequence information.

Citing MMDB
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