@article{Jia2009,
	title = {Dynamic insight into the interaction between porphyrin and {G}-quadruplex {DNAs}: time-resolved fluorescence anisotropy study.},
	volume = {113},
	issn = {1520-5207},
	url = {http://www.ncbi.nlm.nih.gov/pubmed/19924868},
	doi = {10.1021/jp906060d},
	abstract = {Understanding the nature of the interaction between small molecules and G-quadruplex DNA is crucial for the development of novel anticancer drugs. In this paper, we present the first data on time-resolved fluorescence anisotropy study on the interaction between a water-soluble cationic porphyrin H(2)TMPyP4 and four distinct G-quadruplex DNAs, that is, AG(3)(T(2)AG(3))(3), thrombin-binding aptamer (TBA), (G(4)T(4)G(4))2, and (TG(4)T)4. The anisotropy decay curves show the monoexponential for free H(2)TMPyP4 and the biexponential upon binding to the excess amount of G-quadruplex DNAs. The biexponential anisotropy decay can be well interpreted using a wobbling-in-the-cone model. The orientational diffusion of the bound H(2)TMPyP4 is initially restricted to a limited cone angle within the G-quadruplex DNAs, and then an overall orientational relaxation of the G-quadruplex DNA-H(2)TMPyP4 complexes occurs in a longer time scale. It was found that the dynamics of the restricted internal rotation of bound H(2)TMPyP4 strongly depends on the ending structures of the G-quadruplex DNAs. According to the order parameter (Q) calculated from the wobbling-in-the-cone model, we deduce that the degree of restriction around the bound H(2)TMPyP4 follows the order of TBA ¿ (TG(4)T)4 ¿ AG(3)(T(2)AG(3))(3) ¿ (G(4)T(4)G(4))2. Especially, based on the maximum order parameter (Q) of bound H(2)TMPyP4 within TBA, a new sandwich-type binding mode for TBA-H(2)TMPyP4 complex was proposed in which both terminal G-quartet and T*T base pair stack on the porphyrin ring through pi-pi interaction. This study thus provides a new insight into the interaction between G-quadruplex DNAs and H(2)TMPyP4.},
	number = {50},
	journal = {The journal of physical chemistry. B},
	author = {Jia, Guoqing and Feng, Zhaochi and Wei, Chunying and Zhou, Jun and Wang, Xiuli and Li, Can},
	month = dec,
	year = {2009},
	pmid = {19924868},
	note = {ISBN: 8641184694},
	keywords = {\#nosource, Aptamers, Circular Dichroism, DNA, DNA: chemistry, Fluorescence, Fluorescence Polarization, G-Quadruplexes, Molecular Dynamics Simulation, Nucleotide, Nucleotide: chemistry, Porphyrins, Porphyrins: chemistry, Spectrometry, Time Factors},
	pages = {16237--45},
}

{"_id":"pxFnjvSHGYvh74MBD","bibbaseid":"jia-feng-wei-zhou-wang-li-dynamicinsightintotheinteractionbetweenporphyrinandgquadruplexdnastimeresolvedfluorescenceanisotropystudy-2009","author_short":["Jia, G.","Feng, Z.","Wei, C.","Zhou, J.","Wang, X.","Li, C."],"bibdata":{"bibtype":"article","type":"article","title":"Dynamic insight into the interaction between porphyrin and G-quadruplex DNAs: time-resolved fluorescence anisotropy study.","volume":"113","issn":"1520-5207","url":"http://www.ncbi.nlm.nih.gov/pubmed/19924868","doi":"10.1021/jp906060d","abstract":"Understanding the nature of the interaction between small molecules and G-quadruplex DNA is crucial for the development of novel anticancer drugs. In this paper, we present the first data on time-resolved fluorescence anisotropy study on the interaction between a water-soluble cationic porphyrin H(2)TMPyP4 and four distinct G-quadruplex DNAs, that is, AG(3)(T(2)AG(3))(3), thrombin-binding aptamer (TBA), (G(4)T(4)G(4))2, and (TG(4)T)4. The anisotropy decay curves show the monoexponential for free H(2)TMPyP4 and the biexponential upon binding to the excess amount of G-quadruplex DNAs. The biexponential anisotropy decay can be well interpreted using a wobbling-in-the-cone model. The orientational diffusion of the bound H(2)TMPyP4 is initially restricted to a limited cone angle within the G-quadruplex DNAs, and then an overall orientational relaxation of the G-quadruplex DNA-H(2)TMPyP4 complexes occurs in a longer time scale. It was found that the dynamics of the restricted internal rotation of bound H(2)TMPyP4 strongly depends on the ending structures of the G-quadruplex DNAs. According to the order parameter (Q) calculated from the wobbling-in-the-cone model, we deduce that the degree of restriction around the bound H(2)TMPyP4 follows the order of TBA ¿ (TG(4)T)4 ¿ AG(3)(T(2)AG(3))(3) ¿ (G(4)T(4)G(4))2. Especially, based on the maximum order parameter (Q) of bound H(2)TMPyP4 within TBA, a new sandwich-type binding mode for TBA-H(2)TMPyP4 complex was proposed in which both terminal G-quartet and T*T base pair stack on the porphyrin ring through pi-pi interaction. This study thus provides a new insight into the interaction between G-quadruplex DNAs and H(2)TMPyP4.","number":"50","journal":"The journal of physical chemistry. B","author":[{"propositions":[],"lastnames":["Jia"],"firstnames":["Guoqing"],"suffixes":[]},{"propositions":[],"lastnames":["Feng"],"firstnames":["Zhaochi"],"suffixes":[]},{"propositions":[],"lastnames":["Wei"],"firstnames":["Chunying"],"suffixes":[]},{"propositions":[],"lastnames":["Zhou"],"firstnames":["Jun"],"suffixes":[]},{"propositions":[],"lastnames":["Wang"],"firstnames":["Xiuli"],"suffixes":[]},{"propositions":[],"lastnames":["Li"],"firstnames":["Can"],"suffixes":[]}],"month":"December","year":"2009","pmid":"19924868","note":"ISBN: 8641184694","keywords":"#nosource, Aptamers, Circular Dichroism, DNA, DNA: chemistry, Fluorescence, Fluorescence Polarization, G-Quadruplexes, Molecular Dynamics Simulation, Nucleotide, Nucleotide: chemistry, Porphyrins, Porphyrins: chemistry, Spectrometry, Time Factors","pages":"16237–45","bibtex":"@article{Jia2009,\n\ttitle = {Dynamic insight into the interaction between porphyrin and {G}-quadruplex {DNAs}: time-resolved fluorescence anisotropy study.},\n\tvolume = {113},\n\tissn = {1520-5207},\n\turl = {http://www.ncbi.nlm.nih.gov/pubmed/19924868},\n\tdoi = {10.1021/jp906060d},\n\tabstract = {Understanding the nature of the interaction between small molecules and G-quadruplex DNA is crucial for the development of novel anticancer drugs. In this paper, we present the first data on time-resolved fluorescence anisotropy study on the interaction between a water-soluble cationic porphyrin H(2)TMPyP4 and four distinct G-quadruplex DNAs, that is, AG(3)(T(2)AG(3))(3), thrombin-binding aptamer (TBA), (G(4)T(4)G(4))2, and (TG(4)T)4. The anisotropy decay curves show the monoexponential for free H(2)TMPyP4 and the biexponential upon binding to the excess amount of G-quadruplex DNAs. The biexponential anisotropy decay can be well interpreted using a wobbling-in-the-cone model. The orientational diffusion of the bound H(2)TMPyP4 is initially restricted to a limited cone angle within the G-quadruplex DNAs, and then an overall orientational relaxation of the G-quadruplex DNA-H(2)TMPyP4 complexes occurs in a longer time scale. It was found that the dynamics of the restricted internal rotation of bound H(2)TMPyP4 strongly depends on the ending structures of the G-quadruplex DNAs. According to the order parameter (Q) calculated from the wobbling-in-the-cone model, we deduce that the degree of restriction around the bound H(2)TMPyP4 follows the order of TBA ¿ (TG(4)T)4 ¿ AG(3)(T(2)AG(3))(3) ¿ (G(4)T(4)G(4))2. Especially, based on the maximum order parameter (Q) of bound H(2)TMPyP4 within TBA, a new sandwich-type binding mode for TBA-H(2)TMPyP4 complex was proposed in which both terminal G-quartet and T*T base pair stack on the porphyrin ring through pi-pi interaction. This study thus provides a new insight into the interaction between G-quadruplex DNAs and H(2)TMPyP4.},\n\tnumber = {50},\n\tjournal = {The journal of physical chemistry. B},\n\tauthor = {Jia, Guoqing and Feng, Zhaochi and Wei, Chunying and Zhou, Jun and Wang, Xiuli and Li, Can},\n\tmonth = dec,\n\tyear = {2009},\n\tpmid = {19924868},\n\tnote = {ISBN: 8641184694},\n\tkeywords = {\\#nosource, Aptamers, Circular Dichroism, DNA, DNA: chemistry, Fluorescence, Fluorescence Polarization, G-Quadruplexes, Molecular Dynamics Simulation, Nucleotide, Nucleotide: chemistry, Porphyrins, Porphyrins: chemistry, Spectrometry, Time Factors},\n\tpages = {16237--45},\n}\n\n","author_short":["Jia, G.","Feng, Z.","Wei, C.","Zhou, J.","Wang, X.","Li, C."],"key":"Jia2009","id":"Jia2009","bibbaseid":"jia-feng-wei-zhou-wang-li-dynamicinsightintotheinteractionbetweenporphyrinandgquadruplexdnastimeresolvedfluorescenceanisotropystudy-2009","role":"author","urls":{"Paper":"http://www.ncbi.nlm.nih.gov/pubmed/19924868"},"keyword":["#nosource","Aptamers","Circular Dichroism","DNA","DNA: chemistry","Fluorescence","Fluorescence Polarization","G-Quadruplexes","Molecular Dynamics Simulation","Nucleotide","Nucleotide: chemistry","Porphyrins","Porphyrins: chemistry","Spectrometry","Time Factors"],"metadata":{"authorlinks":{}},"html":""},"bibtype":"article","biburl":"https://bibbase.org/zotero/eric.larG4","dataSources":["4i5C7S78DvJNsaHyg","5L2zM5wNE5CBYNuea"],"keywords":["#nosource","aptamers","circular dichroism","dna","dna: chemistry","fluorescence","fluorescence polarization","g-quadruplexes","molecular dynamics simulation","nucleotide","nucleotide: chemistry","porphyrins","porphyrins: chemistry","spectrometry","time factors"],"search_terms":["dynamic","insight","interaction","between","porphyrin","quadruplex","dnas","time","resolved","fluorescence","anisotropy","study","jia","feng","wei","zhou","wang","li"],"title":"Dynamic insight into the interaction between porphyrin and G-quadruplex DNAs: time-resolved fluorescence anisotropy study.","year":2009}