Journal Article10.1021/BI00002A033
A DNA aptamer that binds adenosine and ATP.
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TL;DR: A model of the ATP-binding DNA structure which is based on a stable framework composed of two stacked G- Quartets is proposed, which may stack between the top G-quartet and the two short stems, forming a pocket in which the adenosine or ATP ligand binds.
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Abstract: We have used in vitro selection to isolate adenosine/ATP-binding DNA sequences from a pool of approximately 2 x 10(14) different random-sequence single-stranded DNA molecules. One of these aptamers has been characterized and binds adenosine in solution with a dissociation constant of 6 +/- 3 microM. Experiments with ATP analogs indicate that functional groups on both the base and the sugar of ATP are involved in the ligand/aptamer interaction. The binding domain of this aptamer was localized to a 42 base sequence by deletion analysis. A pool of mutagenized versions of this sequence was then synthesized and screened for functional adenosine binding sequences; comparison of the selected variants revealed two highly conserved guanosine-rich regions, two invariant adenosine residues, and two regions of predominantly Watson--Crick covariation. This data led us to propose a model of the ATP-binding DNA structure which is based on a stable framework composed of two stacked G-quartets. The two highly conserved adenosine residues may stack between the top G-quartet and the two short stems, forming a pocket in which the adenosine or ATP ligand binds. Site-directed mutagenesis, base analog substitution studies, and the design of highly divergent but functional sequences provide support for this model.
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References
Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase
Craig Tuerk,Larry Gold +1 more
TL;DR: High-affinity nucleic acid ligands for a protein were isolated by a procedure that depends on alternate cycles of ligand selection from pools of variant sequences and amplification of the bound species.
10.4K
In vitro selection of RNA molecules that bind specific ligands.
TL;DR: Subpopulations of RNA molecules that bind specifically to a variety of organic dyes have been isolated from a population of random sequence RNA molecules.
9.7K
Selection of single-stranded DNA molecules that bind and inhibit human thrombin.
TL;DR: The isolation of single-stranded DNA aptamers to the protease thrombin of the blood coagulation cascade is described and binding affinities in the range 25–200 nM are reported.
2.5K
Formation of parallel four-stranded complexes by guanine-rich motifs in DNA and its implications for meiosis
Dipankar Sen,Walter Gilbert +1 more
TL;DR: It is speculated that this self-recognition of guanine-rich motifs of DNA serves to bring together, and to zipper up in register, the four homologous chromatids during meiosis.
1.7K
Monovalent cation-induced structure of telomeric DNA: The G-quartet model
TL;DR: It is proposed that the G-quartet structure must be dealt with in vivo by the telomere replication machinery, hydrogen-bonded structures formed from four guanosine residues in a square-planar array.
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