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The mechanism of dissociation of cytosine pairs mediated by silver ions
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List of references:
- Magnetic fingerprint of individual Fe4 molecular magnets under compression by a scanning tunnelling microscope // Nat. Commun. — 2015. — V. 6, no. 1. — P. 8216. — DOI: 10.1038/ncomms9216. — ads: 2015NatCo...6.8216B. , et al.
- Constrained molecular dynamics and the mean potential for an ion pair in a polar solvent // Chem. Phys. — 1989. — V. 129, no. 2. — P. 241–251. — DOI: 10.1016/0301-0104(89)80010-2. , et al.
- DNA-metal base pairs // Angew. Chemie — Int. Ed. — 2007. — V. 46, no. 33. — P. 6226–6236. — DOI: 10.1002/anie.200701185. , , .
- Alternative DNA base pairing through metal coordination // Met. Ions Life Sci. — 2012. — V. 10. — P. 269–294. — DOI: 10.1007/978-94-007-2172-2_10. , .
- NCIPLOT: A Program for Plotting Noncovalent Interaction Regions // J. Chem. Theory Comput. — 2011. — V. 7, no. 3. — P. 625–632. — DOI: 10.1021/ct100641a. , et al.
- HgII/AgI-mediated base pairs and their NMR spectroscopic studies // Inorganica Chim. Acta. — 2016. — V. 452. — P. 34–42. — DOI: 10.1016/j.ica.2016.03.018. , et al.
- Structure Determination of an Ag I — Mediated Cytosine-Cytosine Base Pair within DNA Duplex in Solution with 1H/15N/109Ag NMR Spectroscopy // Chem. — A Eur. J. — 2016. — V. 22, no. 37. — P. 13028–13031. — DOI: 10.1002/chem.201603048. , et al.
- Silver cations fold i-motif at neutral pH // Chem. Commun. — 2013. — V. 49, no. 70. — P. 7696–7698. — DOI: 10.1039/c3cc43495h. , , .
- The Role of Hydrogen Bonds in the Stabilization of Silver-Mediated Cytosine Tetramers // J. Phys. Chem. Lett. — 2015. — V. 6, no. 20. — P. 4061–4066. — DOI: 10.1021/acs.jpclett.5b01864. , et al.
- On the interaction between gold and silver metal atoms and DNA/RNA nucleobases — A comprehensive computational study of ground state properties // Nanotechnol. Rev. — 2015. — V. 4, no. 2. — P. 173–191. , .
- Theoretical study of silver-ion-mediated base pairs: The case of C-Ag-C and C-Ag-A systems // J. Phys. Chem. A. — 2015. — V. 119, no. 21. — P. 5153–5157. — DOI: 10.1021/jp5096739. , , .
- Separable dual-space Gaussian pseudopotentials // Phys. Rev. B. — 1996. — V. 54, no. 3. — P. 1703–1710. — DOI: 10.1103/PhysRevB.54.1703. — ads: 1996PhRvB..54.1703G. , , .
- Supramolecular binding thermodynamics by dispersion-corrected density functional theory // Chem. — A Eur. J. — 2012. — V. 18, no. 32. — P. 9955–9964. — DOI: 10.1002/chem.201200497. .
- Reversible Ag+-crosslinked DNA hydrogels // Chem. Commun. — 2014. — V. 50, no. 31. — P. 4065–4068. — DOI: 10.1039/c3cc49140d. , et al.
- Relativistic separable dual-space Gaussian pseudopotentials from H to Rn // Phys. Rev. B. — 1998. — V. 58, no. 7. — P. 3641–3662. — DOI: 10.1103/PhysRevB.58.3641. — ads: 1998PhRvB..58.3641H. , , .
- Addressing the Properties of “Metallo-DNA” with a Ag(I)-Mediated Supramolecular Duplex // Chem. Sci. — 2019. , et al.
- Atomic Structure of a Fluorescent Ag 8 Cluster Templated by a Multistranded DNA Scaffold // J. Am. Chem. Soc. — 2019. — jacs.8b12203. , et al.
- Cp2k: Atomistic simulations of condensed matter systems // Wiley Interdiscip. Rev. Comput. Mol. Sci. — 2014. — V. 4, no. 1. — P. 15–25. — DOI: 10.1002/wcms.1159. , et al.
- Parmbsc1: A refined force field for DNA simulations // Nat. Methods. — 2015. — V. 13, no. 1. — P. 55–58. — DOI: 10.1038/nmeth.3658. , et al.
- Application of a Metal-Mediated Base Pair to the Detection of Medicinally Relevant Single Nucleotide Polymorphisms // Eur. J. Inorg. Chem. — 2017. — V. 2017, no. 33. — P. 3856. , .
- Metal-Mediated Base Pairs: From Characterization to Application // Chem. — A Eur. J. — 2017. — V. 23, no. 68. — P. 17166–17178. — DOI: 10.1002/chem.201703518. , .
- High-Resolution Crystal Structure of a Silver(I)-RNA Hybrid Duplex Containing Watson-Crick-like C-Silver(I)-C Metallo-Base Pairs // Angew. Chem. Int. Ed. Engl. — 2015. — V. 54, no. 45. — P. 13323–6. — DOI: 10.1002/anie.201507894. , et al.
- A metallo-DNA nanowire with uninterrupted one-dimensional silver array // Nat. Chem. — 2017. — V. 9, no. 10. — P. 956–960. — DOI: 10.1038/nchem.2808. , et al.
- Pseudopotentials for H to Kr optimized for gradient-corrected exchange-correlation functionals // Theor. Chem. Acc. — 2005. — V. 114, no. 1–3. — P. 145–152. — DOI: 10.1007/s00214-005-0655-y. .
- An efficient real space multigrid QM/MM electrostatic coupling // J. Chem. Theory Comput. — 2005. — V. 1, no. 6. — P. 1176–1184. — DOI: 10.1021/ct050123f. , et al.
- Contiguous metal-mediated base pairs comprising two AgIions // Chem. — A Eur. J. — 2011. — V. 17, no. 23. — P. 6533–6544. — DOI: 10.1002/chem.201002944. , et al.
- Metal-mediated base pairs in parallel-stranded DNA // Beilstein J. Org. Chem. — 2017. — V. 13. — P. 2671–2681. — DOI: 10.3762/bjoc.13.265. .
- Synthesis of covalently linked parallel and antiparallel DNA duplexes containing the metal-mediated base pairs T-Hg(ii)-T and C-Ag(i)-C // Chem. Commun. — 2011. — V. 47, no. 5. — P. 1542–1544. — DOI: 10.1039/C0CC02028A. , et al.
- Generalized gradient approximation made simple // Phys. Rev. Lett. — 1996. — V. 77, no. 18. — P. 3865–3868. — DOI: 10.1103/PhysRevLett.77.3865. — ads: 1996PhRvL..77.3865P. , , .
- Ag-DNA Emitter: Metal Nanorod or Supramolecular Complex? // J. Phys. Chem. Lett. — 2016. — V. 7, no. 18. — P. 3560–3566. — DOI: 10.1021/acs.jpclett.6b01672. , et al.
- Ultrafast fluorescence dynamics of DNA-based silver clusters // Phys. Chem. Chem. Phys. — 2018. — V. 20, no. 44. — P. 28205–28210. — DOI: 10.1039/C8CP05727C. , et al.
- Parallel G-duplex and C-duplex DNA with Uninterrupted Spines of Ag I — Mediated Base Pairs // J. Phys. Chem. Lett. — 2018. — P. 1–43. , et al.
- Silver-mediated base pairings: Towards dynamic DNA nanostructures with enhanced chemical and thermal stability // New J. Phys. — 2016. — V. 18, no. 4. — P. 1–14. — DOI: 10.1088/1367-2630/18/4/045008. , .
- Structures, physicochemical properties, and applications of T-HgII-T, C-AgI-C, and other metallo-base-pairs // Chem. Commun. — 2015. — V. 51, no. 98. — P. 17343–17360. — DOI: 10.1039/C5CC02693H. , et al.
- Thermodynamic and structural properties of the specific binding between Ag+ ion and C:C mismatched base pair in duplex DNA to form C-Ag-C metal-mediated base pair // Biochimie. — 2012. — V. 94. — P. 2431–2440. — DOI: 10.1016/j.biochi.2012.06.024. , et al.
- Gaussian basis sets for accurate calculations on molecular systems in gas and condensed phases // J. Chem. Phys. — 2007. — V. 127, no. 11. — 114105. — DOI: 10.1063/1.2770708. — ads: 2007JChPh.127k4105V. , .
- Free energy calculation of modified base-pair formation in explicit solvent: A predictive model. — 2009. — P. 2278–2287. , , .
- DNA as UV light-harvesting antenna // Nucleic Acids Res. — 2018. — V. 46, no. 7. — P. 3543–3551. — DOI: 10.1093/nar/gkx1185. , et al.
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