Citation: YU Ze, LI Xiaohong, LI Yunchao, YE Mingfu. K⁺ Concentration-Dependent Conformational Change of Pb²⁺-Stabilized G-quadruplex[J]. Acta Physico-Chimica Sinica, ;2018, 34(11): 1293-1298. doi: 10.3866/PKU.WHXB201804111 shu

K⁺ Concentration-Dependent Conformational Change of Pb²⁺-Stabilized G-quadruplex

YU Ze ¹ ,
LI Xiaohong ^1,, ,
LI Yunchao ^1,, ,
YE Mingfu ^2,,

1.
College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China
2.
School of Chemistry and Chemical Engineering, Anhui University of Technology, Maanshan, 243002, Anhui Province, P. R. China

Corresponding author: LI Xiaohong, lxhxiao@bnu.edu.cn LI Yunchao, liyc@bnu.edu.cn YE Mingfu, yemingfu@ahut.edu.cn
Received Date: 26 February 2018
Revised Date: 30 March 2018
Accepted Date: 9 April 2018
Available Online: 11 November 2018
Fund Project: the National Natural Science Foundation of China 21673022The project was supported by the National Natural Science Foundation of China (21673022)

DNA can adopt a diverse range of structural conformations, including duplexes, triplexes, and quadruplexes. Among these structures, G-quadruplexes have attracted much more attention of researchers. For G-rich DNA sequences, they can fold into multiple G-quadruplex conformations, such as parallel, antiparallel, or hybrid, and the exact conformation is influenced by G-rich DNA sequence, strand concentration, and binding cations. Among the factors influencing the G-quadruplex conformation and stability, cations played a really important role. Numerous studies have reported cation-dependent stability and topological changes of G-quadruplexes; however, most of studies have focused on the effect of individual cation (such as charge, radii, or hydration, etc.), and only few have assessed the effect of competition between cations at different concentrations. Actually, most biological and aqueous systems contained multiple cations and each of the cations had very different concentrations. Thus, investigation of the competitions between different cations (at different concentrations) for binding with G-quadruplexes and their effects on polymorphism of G-quadruplex is critical, which would improve our understanding of the roles of G-quadruplexes and assist us in further exploring their potential applications in biochemical, biomedical, and environmental systems. Under this situation, we focused on K⁺- and Pb²⁺-stabilized G-quadruplex, two major cations that are usually used to stabilize G-quadruplex. It has been shown that for a given G-quadruplex forming DNA sequence, Pb²⁺-stabilized G-quadruplex was more stable than K⁺-stabilized G-quadruplex, and Pb²⁺ could substitute K⁺ in K⁺-stabilized G-quadruplex. However, the concentrations of K⁺ that allow such a substitution are not completely studied. Previous studies have used G-quadruplex-based fluorescent, colorimetric, and electrochemical sensors for detecting Pb²⁺, and these methods show excellent selectivity for Pb²⁺ over K⁺. Although G-quadruplex-based Pb²⁺ sensors were developed, their applications in real samples containing K⁺ were greatly limited. Thus, how K⁺ and Pb²⁺ compete for binding to G-quadruplex and how K⁺ concentrations affect the stability of Pb²⁺-stabilized G-quadruplex remain elusive. In this study, eight G-rich DNA sequences were selected to investigate the effect of K⁺ concentration on Pb²⁺-stabilized G-quadruplex. Previous studies have established that the presence of K⁺ cannot alter the stability of Pb²⁺-stabilized G-quadruplex. In contrast to this, our results indicated that K⁺ could induce a conformational switch in Pb²⁺-stabilized T2TT (G-rich DNA sequence, forming G-quadruplex in the presence of Pb²⁺), and further replace Pb²⁺ in Pb²⁺-stabilized T2TT and transform it into 2K⁺-stabilized T2TT, which is strictly K⁺ concentration-dependent. Importantly, such a conformational switch could be observed for other seven selected G-rich sequences as well. Therefore, our findings provide a new insight into the exchange and competition of cations in G-quadruplex.
- Lead ion,
- Potassium ion,
- G-quadruplex,
- G-rich DNA sequence,
- Conformational switch
1. [1]
  Davis, J. T. Angew. Chem. Int. Ed.2004, 43, 668. doi: 10.1002/anie.200300589 doi: 10.1002/anie.200300589
2. [2]
  Maizels, N. Nat. Struct. Mol. Biol.2006, 13, 1055. doi: 10.1038/nsmb1171 doi: 10.1038/nsmb1171
3. [3]
  Sun, H.; Li, X.; Li, Y.; Fan, L.; Kraatz, H. B. Analyst 2013, 138, 856. doi: 10.1039/c2an36564b doi: 10.1039/c2an36564b
4. [4]
  Xu, L.; Shen, X.; Hong, S.; Wang, J.; Zhang, Y.; Wang, H.; Zhang, J.; Pei, R. Chem.Commun.2015, 51, 8165. doi: 10.1039/c5cc01590a doi: 10.1039/c5cc01590a
5. [5]
  Liu, J.; Lu, Y. J. Am. Chem. Soc.2003, 125, 6642. doi: 10.1021/ja034775u doi: 10.1021/ja034775u
6. [6]
  Li, C. L.; Liu, K. T.; Lin, Y. W.; Chang, H. T. Anal.Chem.2011, 83, 225. doi: 10.1021/ac1028787 doi: 10.1021/ac1028787
7. [7]
  Kim, H. N.; Ren, W. X.; Kim, J. S.; Yoon, J. Chem Soc. Rev.2012, 41, 3210. doi: 10.1039/c1cs15245a doi: 10.1039/c1cs15245a
8. [8]
  Hwang, K.; Wu, P.; Kim, T.; Lei, L.; Tian, S.; Wang, Y.; Lu, Y. Angew. Chem. Int. Ed.2014, 53, 13798. doi: 10.1002/anie.201408333 doi: 10.1002/anie.201408333
9. [9]
  Yang, L.; Qing, Z.; Liu, C.; Tang, Q.; Li, J.; Yang, S.; Zheng, J.; Yang, R.; Tan, W. Anal. Chem.2016, 88, 9285. doi: 10.1021/acs.analchem.6b02667 doi: 10.1021/acs.analchem.6b02667
10. [10]
  Yang, J.; Dou, B.; Yuan, R.; Xiang, Y. Anal. Chem.2016, 88, 8218. doi: 10.1021/acs.analchem.6b02035 doi: 10.1021/acs.analchem.6b02035
11. [11]
  Liu, Z.; Luo, X.; Li, Z.; Huang, Y.; Nie, Z.; Wang, H. H.; Yao, S. Anal. Chem.2017, 89, 1892. doi: 10.1021/acs.analchem.6b04360 doi: 10.1021/acs.analchem.6b04360
12. [12]
  Li, X. M.; Zheng, K. W.; Hao, Y. H.; Tan, Z. Angew.Chem. Int. Ed.2016, 55, 13759. doi: 10.1002/anie.201607195 doi: 10.1002/anie.201607195
13. [13]
  Hansel-Hertsch, R.; Antonio, M. D.; Balasubramanian, S. Nat.Rev. Mol. Cell Biol.2017, 18, 279. doi: 10.1038/nrm.2017.3 doi: 10.1038/nrm.2017.3
14. [14]
  Ge, L.; Wang, W.; Sun, X.; Hou, T.; Li, F. Anal.Chem.2016, 88, 9691. doi: 10.1021/acs.analchem.6b02584 doi: 10.1021/acs.analchem.6b02584
15. [15]
  Hud, N. V. Nucleic Acid-Metal Ion Interactions; Royal Society of Chemistry: Cambridge, UK, 2009.
16. [16]
  Neidle, S.; Balasubramanian, S. Quadruplex Nucleic Acids; Royal Society of Chemistry: Cambridge, UK, 2006; Vol. 7.
17. [17]
  Liu, W.; Zhu, H.; Zheng, B.; Cheng, S.; Fu, Y.; Li, W.; Lau, T. C.; Liang, H. Nucleic Acids Res.2012, 40, 4229. doi: 10.1093/nar/gkr1310 doi: 10.1093/nar/gkr1310
18. [18]
  Liu, W.; Zheng, B.; Cheng, S.; Fu, Y.; Li, W.; Lau, T. C.; Liang, H. Soft Matter 2012, 8, 7017. doi: 10.1039/c2sm25839k doi: 10.1039/c2sm25839k
19. [19]
  Liu, W.; Fu, Y.; Zheng, B.; Cheng, S.; Li, W.; Lau, T. C.; Liang, H. J. Phys. Chem. B 2011, 115, 13051. doi: 10.1021/jp2074489 doi: 10.1021/jp2074489
20. [20]
  Ma, L.; Iezzi, M.; Kaucher, M. S.; Lam, Y. F.; Davis, J. T. J. Am. Chem. Soc.2006, 128, 15269. doi: 10.1021/ja064878n doi: 10.1021/ja064878n
21. [21]
  Gu, J.; Leszczynski, J. J. Phys.Chem. A 2002, 106, 529. doi: 10.1021/jp012739g doi: 10.1021/jp012739g
22. [22]
  Kotch, F. W.; Fettinger, J. C.; Davis, J. T. Org. Lett.2000, 2, 3277. doi: 10.1021/ol0065120 doi: 10.1021/ol0065120
23. [23]
  Hud, N. V.; Smith, F. W.; Anet, F. A.; Feigon, J. Biochemistry 1996, 35, 15383. doi: 10.1021/bi9620565 doi: 10.1021/bi9620565
24. [24]
  Gray, R. D.; Chaires, J. B. Biophys. Chem.2011, 159, 205. doi: 10.1016/j.bpc.2011.06.012 doi: 10.1016/j.bpc.2011.06.012
25. [25]
  Largy, E.; Marchand, A.; Amrane, S.; Gabelica, V.; Mergny, J. L. J. Am. Chem. Soc.2016, 138, 2780. doi: 10.1021/jacs.5b13130 doi: 10.1021/jacs.5b13130
26. [26]
  Sen, D.; Gilbert, W. Nature 1990, 344, 410. doi: 10.1038/344410a0 doi: 10.1038/344410a0
27. [27]
  Sun, H.; et al. Chem. Commun.2013, 49, 4510. doi: 10.1039/c3cc39020a doi: 10.1039/c3cc39020a
28. [28]
  Sket, P.; Crnugelj, M.; Plavec, J. Nucleic Acids Res.2005, 33, 3691. doi: 10.1093/nar/gki690 doi: 10.1093/nar/gki690
29. [29]
  Liu, Y.; Ren, J.; Qin, Y.; Li, J.; Liu, J.; Wang, E. Chem.Commun.2012, 48, 802. doi: 10.1039/c1cc15979h doi: 10.1039/c1cc15979h
30. [30]
  Smirnov, I.; Shafer, R. H. J. Mol.Biol.2000, 296, 1. doi: 10.1006/jmbi.1999.3441 doi: 10.1006/jmbi.1999.3441
31. [31]
  Zhai, W.; Du, C.; Li, X. Chem.Commun. 2014, 50, 2093. doi: 10.1039/c3cc47763k doi: 10.1039/c3cc47763k
32. [32]
  Li, T.; Wang, E.; Dong, S. J. Am. Chem. Soc.2009, 131, 15082. doi: 10.1021/ja9051075 doi: 10.1021/ja9051075
33. [33]
  Wang, X.; Xi, Q.; Peng, L.; Ge, J.; Kan, Y.; Jiang, J.; Shen, G.; Yu, R. Anal. Methods 2013, 5, 5597. doi: 10.1039/c3ay41097h doi: 10.1039/c3ay41097h
34. [34]
  Li, T.; Wang, E.; Dong, S. Anal. Chem.2010, 82, 1515. doi: 10.1021/ac902638v doi: 10.1021/ac902638v
35. [35]
  Wang, H.; Wang, D. M.; Huang, C. Z. Analyst 2015, 140, 5742. doi: 10.1039/c5an00884k doi: 10.1039/c5an00884k
36. [36]
  Guo, Y.; Zhou, L.; Xu, L.; Zhou, X.; Hu, J.; Pei, R. Sci.Rep.2014, 4, 7315. doi: 10.1038/srep07315 doi: 10.1038/srep07315
37. [37]
  Zhao, Y.; Zhang, Q.; Wang, W.; Jin, Y. Biosens. Bioelectron.2013, 43, 231. doi: 10.1016/j.bios.2012.12.004 doi: 10.1016/j.bios.2012.12.004
38. [38]
  Guo, L.; Nie, D.; Qiu, C.; Zheng, Q.; Wu, H.; Ye, P.; Hao, Y.; Fu, F.; Chen, G. Biosens.Bioelectron. 2012, 35, 123. doi: 10.1016/j.bios.2012.02.031 doi: 10.1016/j.bios.2012.02.031
39. [39]
  Chen, H.; Sun, H.; Zhang, X.; Sun, X.; Shi, Y.; Tang, Y. RSC Adv.2015, 5, 1730. doi: 10.1039/c4ra11395k doi: 10.1039/c4ra11395k
40. [40]
  Cheng, S.; Zheng, B.; Wang, M.; Ge, X.; Zhao, Q.; Liu, W.; Lam, M. H. Biosens.Bioelectron.2014, 53, 479. doi: 10.1016/j.bios.2013.10.016 doi: 10.1016/j.bios.2013.10.016
41. [41]
  Li, T.; Dong, S.; Wang, E. J. Am.Chem. Soc.2010, 132, 13156. doi: 10.1021/ja105849m. doi: 10.1021/ja105849m
42. [42]
  Bagheri, Z.; Ranjbar, B.; Latifi, H.; Zibaii, M. I.; Moghadam, T. T.; Azizi, A. Int. J. Biol. Macromol.2015, 72, 806. doi: 10.1016/j.ijbiomac.2014.09.016 doi: 10.1016/j.ijbiomac.2014.09.016
43. [43]
  Smirnov, I. V.; Kotch, F. W.; Pickering, I. J.; Davis, J. T.; Shafer, R. H. Biochemistry 2002, 41, 12133. doi: 10.1021/bi020310p doi: 10.1021/bi020310p
1. [1]
  Jun LUO , Baoshu LIU , Yunchang ZHANG , Bingkai WANG , Beibei GUO , Lan SHE , Tianheng CHEN . Europium(Ⅲ) metal-organic framework as a fluorescent probe for selectively and sensitively sensing Pb²⁺ in aqueous solution. Chinese Journal of Inorganic Chemistry, 2024, 40(12): 2438-2444. doi: 10.11862/CJIC.20240240
2. [2]
  Wendian XIE , Yuehua LONG , Jianyang XIE , Liqun XING , Shixiong SHE , Yan YANG , Zhihao HUANG . Preparation and ion separation performance of oligoether chains enriched covalent organic framework membrane. Chinese Journal of Inorganic Chemistry, 2024, 40(8): 1528-1536. doi: 10.11862/CJIC.20240050
3. [3]
  Ke Zhao , Zhen Liu , Luyao Liu , Changyuan Yu , Jingshun Pan , Xuguang Huang . Functionalized Reflective Structure Fiber-Optic Interferometric Sensor for Trace Detection of Lead Ions. Acta Physico-Chimica Sinica, 2024, 40(4): 2304029-0. doi: 10.3866/PKU.WHXB202304029
4. [4]
  Fan Yang , Zheng Liu , Da Wang , KwunNam Hui , Yelong Zhang , Zhangquan Peng . Preparation and Properties of P-Bi₂Te₃/MXene Superstructure-based Anode for Potassium-Ion Battery. Acta Physico-Chimica Sinica, 2024, 40(2): 2303006-0. doi: 10.3866/PKU.WHXB202303006
5. [5]
  Qingtang ZHANG , Xiaoyu WU , Zheng WANG , Xiaomei WANG . Performance of nano Li₂FeSiO₄/C cathode material co-doped by potassium and chlorine ions. Chinese Journal of Inorganic Chemistry, 2024, 40(9): 1689-1696. doi: 10.11862/CJIC.20240115
6. [6]
  Jianquan Liu , Xiangshan Wang . Teaching Design and Practice of Naming Rules for Circular Isomer Configuration under the Guidance of Information Literacy. University Chemistry, 2025, 40(7): 352-358. doi: 10.12461/PKU.DXHX202409082
7. [7]
  Jiaxuan Zuo , Kun Zhang , Jing Wang , Xifei Li . Nucleation Regulation and Mechanism of Precursors for Nickel Cobalt Manganese-based Cathode Materials in Lithium-Ion Batteries. Acta Physico-Chimica Sinica, 2025, 41(1): 100009-0. doi: 10.3866/PKU.WHXB202404042
8. [8]
  Tieping CAO , Yuejun LI , Dawei SUN . Surface plasmon resonance effect enhanced photocatalytic CO₂ reduction performance of S-scheme Bi₂S₃/TiO₂ heterojunction. Chinese Journal of Inorganic Chemistry, 2025, 41(5): 903-912. doi: 10.11862/CJIC.20240366
9. [9]
  Kexin Dong , Chuqi Shen , Ruyu Yan , Yanping Liu , Chunqiang Zhuang , Shijie Li . Integration of Plasmonic Effect and S-Scheme Heterojunction into Ag/Ag₃PO₄/C₃N₅ Photocatalyst for Boosted Photocatalytic Levofloxacin Degradation. Acta Physico-Chimica Sinica, 2024, 40(10): 2310013-0. doi: 10.3866/PKU.WHXB202310013
10. [10]
  Zhiming Feng , Lili Wu , Chengming Wang . Doubly Oxidized Carbene. University Chemistry, 2025, 40(9): 326-331. doi: 10.12461/PKU.DXHX202411008
11. [11]
  Yingran Liang , Fei Wang , Jiabao Sun , Hongtao Zheng , Zhenli Zhu . Construction and Application of a New Experimental Device for Determination of Alkaline Metal Elements by Plasma Atomic Emission Spectrometry Based on Solution Cathode Glow Discharge: An Alternative Approach for Fundamental Teaching Experiments in Emission Spectroscopy. University Chemistry, 2024, 39(5): 380-387. doi: 10.3866/PKU.DXHX202312024
12. [12]
  Gonglan Ye , Xia Yin , Feng Xu , Peng Yang , Yingpeng Wu , Huilong Fei . Innovations in “Four-in-One” Inorganic Chemistry Education. University Chemistry, 2024, 39(8): 136-141. doi: 10.3866/PKU.DXHX202401071
13. [13]
  Zhexue Lu , Ping Wu , Huihui Li , Libai Wen . 四“味”一体的无机及分析化学课程思政. University Chemistry, 2025, 40(6): 333-340. doi: 10.12461/PKU.DXHX202405196
14. [14]
  Yuyao Wang , Zhitao Cao , Zeyu Du , Xinxin Cao , Shuquan Liang . Research Progress of Iron-based Polyanionic Cathode Materials for Sodium-Ion Batteries. Acta Physico-Chimica Sinica, 2025, 41(4): 2406014-0. doi: 10.3866/PKU.WHXB202406014
15. [15]
  Wenjun Zheng . Application in Inorganic Synthesis of Ionic Liquids. University Chemistry, 2024, 39(8): 163-168. doi: 10.3866/PKU.DXHX202401020
16. [16]
  Guoze Yan , Bin Zuo , Shaoqing Liu , Tao Wang , Ruoyu Wang , Jinyang Bao , Zhongzhou Zhao , Feifei Chu , Zhengtong Li , Yamauchi Yusuke , Melhi Saad , Xingtao Xu . Opportunities and Challenges of Capacitive Deionization for Uranium Extraction from Seawater. Acta Physico-Chimica Sinica, 2025, 41(4): 2404006-0. doi: 10.3866/PKU.WHXB202404006
17. [17]
  Zilin Hu , Yaoshen Niu , Xiaohui Rong , Yongsheng Hu . Suppression of Voltage Decay through Ni³⁺ Barrier in Anionic-Redox Active Cathode for Na-Ion Batteries. Acta Physico-Chimica Sinica, 2024, 40(6): 2306005-0. doi: 10.3866/PKU.WHXB202306005
18. [18]
  Chen Hu , Yu Wu , Lianqing Chen , Tao Huang , Chunya Li , Lin Li , Bingguang Zhang , Peng Mei . 基于“三位一体四融合”策略的化学实验室安全课程创新与探索. University Chemistry, 2025, 40(8): 25-32. doi: 10.12461/PKU.DXHX202410088
19. [19]
  Hong LI , Xiaoying DING , Cihang LIU , Jinghan ZHANG , Yanying RAO . Detection of iron and copper ions based on gold nanorod etching colorimetry. Chinese Journal of Inorganic Chemistry, 2024, 40(5): 953-962. doi: 10.11862/CJIC.20230370
20. [20]
  Feiya Cao , Qixin Wang , Pu Li , Zhirong Xing , Ziyu Song , Heng Zhang , Zhibin Zhou , Wenfang Feng . Magnesium-Ion Conducting Electrolyte Based on Grignard Reaction: Synthesis and Properties. University Chemistry, 2024, 39(3): 359-368. doi: 10.3866/PKU.DXHX202308094

Get Citation

PDF

XML

Metrics

PDF Downloads(6)
Abstract views(1017)
HTML views(78)

通讯作者: 陈斌, bchen63@163.com

1.
沈阳化工大学材料科学与工程学院沈阳 110142

K+ Concentration-Dependent Conformational Change of Pb2+-Stabilized G-quadruplex

Metrics

通讯作者: 陈斌, bchen63@163.com

K⁺ Concentration-Dependent Conformational Change of Pb²⁺-Stabilized G-quadruplex