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Varghese N, Jose JR, Krishna PM, Philip D, Joy F, Vinod TP, Prathapachandra Kurup MR, Nair Y. In vitro
Analytical Techniques as Screening Tools to investigate the Metal chelate‐DNA interactions. ChemistrySelect 2023. [DOI: 10.1002/slct.202203615] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Affiliation(s)
- Nikita Varghese
- Department of Chemistry CHRIST (Deemed to be University) Hosur Road Bengaluru 560 029 Karnataka India
| | - Joyna Reba Jose
- Department of Chemistry CHRIST (Deemed to be University) Hosur Road Bengaluru 560 029 Karnataka India
| | - P. Murali Krishna
- Department of Chemistry Ramaiah institute of technology MSRIT Post, M S Ramaiah Nagar Bengaluru 560054 Karnataka India
| | - Darit Philip
- Department of Chemistry CHRIST (Deemed to be University) Hosur Road Bengaluru 560 029 Karnataka India
| | - Francis Joy
- Department of Chemistry CHRIST (Deemed to be University) Hosur Road Bengaluru 560 029 Karnataka India
| | - T. P. Vinod
- Department of Chemistry CHRIST (Deemed to be University) Hosur Road Bengaluru 560 029 Karnataka India
| | | | - Yamuna Nair
- Department of Chemistry CHRIST (Deemed to be University) Hosur Road Bengaluru 560 029 Karnataka India
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2
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Shen R, Chen Y, Wu J, Zhao L, Yang A, Kou X. Effect of Bis-Dimethylamine Substitution on DNA Binding Property and Cytotoxic Activity of Polyhydroxyxanthone. Chem Biodivers 2022; 19:e202101021. [PMID: 35324082 DOI: 10.1002/cbdv.202101021] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2021] [Accepted: 03/24/2022] [Indexed: 12/30/2022]
Abstract
A bis-dimethylamine substituted xanthone (Xan-2) was obtained by cationic modification of the free C3 and C6 hydroxy groups of 1,3,6-trihydroxyxanthone (Xan-1) which was isolated from Polygala hongkongensis Hemsl.. The results of the spectroscopic analysis, melting profiles, electrophoretic migration, PCR assay and molecular docking indicated that the hydrophobic plane of Xan-1 and Xan-2 could intercalate into the DNA base pairs meanwhile the basic amine alkyl chain of Xan-2 could bind with DNA phosphate framework via electrostatic interaction. Thus, Xan-2 exhibited higher DNA binding affinity than Xan-1. Further study showed that Xan-2 could inhibit the proliferation of HeLa, SGC-7901 and A549 cells effectively by MTT assay and induce apoptosis of HeLa cells as detected by AO/EB staining and flow cytometry assay. Interestingly, Xan-2 exhibited selective cytotoxicity to cells, which was proved by its relatively low inhibitory effect on Raw 264.7 cell. What these studies mean is that disubstituted amine alkyl chains will play an important role in DNA binding property and cytotoxic activity, providing a direction for the development of novel potential antitumor agents.
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Affiliation(s)
- Rui Shen
- School of Chinese Materia Medica, Tianjin University of Traditional Chinese Medicine, Tianjin, 301617, China
| | - Yuhong Chen
- School of Chinese Materia Medica, Tianjin University of Traditional Chinese Medicine, Tianjin, 301617, China
| | - Jianhua Wu
- School of Chinese Materia Medica, Tianjin University of Traditional Chinese Medicine, Tianjin, 301617, China
| | - Lihua Zhao
- Tianjin Renai College, Tianjin, 301636, China
| | - Aihong Yang
- School of Chinese Materia Medica, Tianjin University of Traditional Chinese Medicine, Tianjin, 301617, China
| | - Xiaodi Kou
- School of Chinese Materia Medica, Tianjin University of Traditional Chinese Medicine, Tianjin, 301617, China
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Alcázar JJ, Márquez E, García-Río L, Robles-Muñoz A, Fierro A, Santos JG, Aliaga ME. Changes in Protonation Sites of 3-Styryl Derivatives of 7-(dialkylamino)-aza-coumarin Dyes Induced by Cucurbit[7]uril. Front Chem 2022; 10:870137. [PMID: 35494653 PMCID: PMC9046931 DOI: 10.3389/fchem.2022.870137] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2022] [Accepted: 03/03/2022] [Indexed: 11/13/2022] Open
Abstract
The incorporation of a guest, with different basic sites, into an organized system (host), such as macrocycles, could stabilize, detect, or promote the formation of a certain protomer. In this context, this work aimed to study the influence of cucurbit[7]uril (CB7) on dyes such as 7-(dimethylamino)-aza-coumarins, which have more than one basic site along their molecular structure. For this, three 3-styryl derivatives of 7-(dialkylamino)-aza-coumarin dyes (SAC1-3) were synthesized and characterized by NMR, ESI-HRMS and IR. The spectral behaviour of the SACs in the absence and presence of CB7 was studied. The results showed large shifts in the UV-vis spectrum in acid medium: a hypsochromic shift of ≈5400 cm−1 (SAC1-2) and ≈3500 cm−1 (SAC3) in the absence of CB7 and a bathochromic shift of ≈4500 cm−1 (SAC1-3) in the presence of CB7. The new absorptions at long and short wavelengths were assigned to the corresponding protomers by computational calculations at the density functional theory (DFT) level. Additionally, the binding mode was corroborated by molecular dynamics simulations. Findings revealed that in the presence of CB7 the heterocyclic nitrogen was preferably protonated instead of the dialkylamino group. Namely, CB7 induces a change in the protonation preference at the basic sites of the SACs, as consequence of the molecular recognition by the macrocycle.
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Affiliation(s)
- Jackson J. Alcázar
- Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Santiago, Chile
| | - Edgar Márquez
- Departamento de Química y Biología, Facultad de Ciencias Exactas, Grupo de Investigaciones en Química y Biología, Universidad Del Norte, Barranquilla, Colombia
| | - Luis García-Río
- Departamento de Química Física, Centro de Investigación en Química Biológica y Materiales Moleculares (CIQUS), Universidad de Santiago, Santiago, Spain
| | - Agustín Robles-Muñoz
- Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Santiago, Chile
| | - Angélica Fierro
- Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Santiago, Chile
| | - José G. Santos
- Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Santiago, Chile
- *Correspondence: José G. Santos, ; Margarita E. Aliaga,
| | - Margarita E. Aliaga
- Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Santiago, Chile
- *Correspondence: José G. Santos, ; Margarita E. Aliaga,
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Chernikova EY, Berdnikova DV. Cucurbiturils in nucleic acids research. Chem Commun (Camb) 2020; 56:15360-15376. [PMID: 33206072 DOI: 10.1039/d0cc06583h] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
During the past ten years, the importance of cucurbiturils (CB[n]) as macrocyclic hosts in supramolecular assemblies with various types of natural and synthetic nucleic acids (NAs) has increased explosively. As a component of such systems, CB[n] macrocycles can play a wide spectrum of roles from drug and gene delivery vehicles to catalysts/inhibitors of biochemical reactions and even building blocks for NA-based materials. The aim of this highlight article is to describe the development of the CB[n] applications in nucleic acids research and to outline the current situation and perspectives of this fascinating synergistic combination of supramolecular chemistry of CB[n] and NAs.
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Affiliation(s)
- Ekaterina Y Chernikova
- Laboratory of Photoactive Supramolecular Systems, A. N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, Moscow, Russia.
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Gan C, Huang X, Zhan J, Liu X, Huang Y, Cui J. Study on the interactions between B-norcholesteryl benzimidazole compounds with ct-DNA. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 227:117525. [PMID: 31703992 DOI: 10.1016/j.saa.2019.117525] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/05/2019] [Revised: 07/30/2019] [Accepted: 09/09/2019] [Indexed: 06/10/2023]
Abstract
The study of molecule-DNA interaction is very important for designing an improved therapeutic agent. In previous studies, we synthesized some B-norcholesteryl benzimidazole compounds, and the tests on cancer cells showed that these compounds had good in vitro anti-cancer activities. In order to further investigate mechanism of their actions, three different B-norcholesteryl benzimidazole compounds were selected and interaction of these compounds with the calf thymus DNA (ct-DNA) was monitored by using various methods including UV-Vis and fluorescence spectroscopic techniques, viscosity measurement, and circular dichroism (CD). The results proved a hypochromic effect accompanied with a slight red-shift due to the interaction of the molecules with ct-DNA. According to the UV-Vis and fluorescence spectra, the mentioned compounds were bound to DNA, preferentially through partial intercalation into the DNA helix. Moreover, the ethidium bromide (EB) and Hoechst 33258 competitive binding experiments were also used to confirm the interaction mode of the compounds with ct-DNA. In the Hoechst 33258 displacement experiment, no significant change in the fluorescence intensity was observed. Additional assays such as iodide quenching, viscosity, and CD spectroscopy further confirmed that intercalation should be the major binding mode of the selected compounds with DNA. The cytotoxicity of these three compounds was also evaluated by MTT method, and the results confirmed that binding ability of these compounds to DNA was consistent with their cytotoxicity behavior. The experimental results indicated a higher binding affinity for compound 3 compared to the other compounds. This research provided a better understanding on the molecular mechanism of the interaction between B-norcholesteryl benzimidazole compounds and tumor cells, and offered a beneficial perspective to the designation of novel B-norsteroidal anticancer compounds.
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Affiliation(s)
- Chunfang Gan
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, Key Laboratory of Beibu Gulf Environment Change and Resources Utilization, School of Chemistry and Material, Nanning Normal University, Nanning, 530001, PR China.
| | - Xiaotong Huang
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, Key Laboratory of Beibu Gulf Environment Change and Resources Utilization, School of Chemistry and Material, Nanning Normal University, Nanning, 530001, PR China
| | - Junyan Zhan
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, Key Laboratory of Beibu Gulf Environment Change and Resources Utilization, School of Chemistry and Material, Nanning Normal University, Nanning, 530001, PR China
| | - Xiaolan Liu
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, Key Laboratory of Beibu Gulf Environment Change and Resources Utilization, School of Chemistry and Material, Nanning Normal University, Nanning, 530001, PR China
| | - Yanmin Huang
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, Key Laboratory of Beibu Gulf Environment Change and Resources Utilization, School of Chemistry and Material, Nanning Normal University, Nanning, 530001, PR China
| | - Jianguo Cui
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, Key Laboratory of Beibu Gulf Environment Change and Resources Utilization, School of Chemistry and Material, Nanning Normal University, Nanning, 530001, PR China; Guangxi Colleges and University Key Laboratory of Beibu Gulf Oil and Natural Gas Resource Effective Utilization, Beibuwan University, Qinzhou, 535099, PR China.
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Chernikova EY, Ruleva AY, Tsvetkov VB, Fedorov YV, Novikov VV, Aliyeu TM, Pavlov AA, Shepel NE, Fedorova OA. Cucurbit[7]uril-driven modulation of ligand-DNA interactions by ternary assembly. Org Biomol Chem 2020; 18:755-766. [PMID: 31912862 DOI: 10.1039/c9ob02543j] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The design of small organic molecules with a predictable and desirable DNA-binding mechanism is a topical research task for biomedicine application. Herein, we demonstrate an attractive supramolecular strategy for controlling the non-covalent ligand-DNA interaction by binding with cucurbituril as a synthetic receptor. With a combination of UV/vis, CD and NMR experiments, we demonstrate that the bis-styryl dye with two suitable binding sites can involve double stranded DNA and cucurbituril in the formation of the supramolecular triad. The ternary assembly is formed as a result of the interaction of macrocyclic cucurbituril with one pyridinium fragment of the bis-styryl dye, while the second pyridinium fragment of the dye is effectively associated with DNA backbones, which leads to a change in the ligand-DNA binding mode from aggregation to a minor groove. This exciting outcome was supported by molecular docking studies that help to understand the molecular orientation of the supramolecular triad and elucidate the destruction of dye aggregates caused by cucurbituril. These studies provide valuable information on the mechanisms of DNA binding to small molecules and recognition processes in bioorganic supramolecular assemblies constructed from multiple non-covalent interactions.
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Affiliation(s)
- Ekaterina Y Chernikova
- Laboratory of Photoactive Supramolecular Systems, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, Moscow, 119991, Russia.
| | - Anna Y Ruleva
- Laboratory of Photoactive Supramolecular Systems, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, Moscow, 119991, Russia.
| | - Vladimir B Tsvetkov
- Computational Oncology Group, I.M. Sechenov First Moscow State Medical University, Trubetskaya str, 8/2, Moscow, 119146 Russia and Biophysics Department, Research and Clinical Center for Physical Chemical Medicine, Malaya Pirogovskaya str. 1a, Moscow 119435, Russia and Polyelectrolytes and Biomedical Polymers Laboratory, A.V. Topchiev Institute of Petrochemical Synthesis, Russian Academy of Sciences, Leninsky prospect str. 29, Moscow, 119991, Russia
| | - Yuri V Fedorov
- Laboratory of Photoactive Supramolecular Systems, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, Moscow, 119991, Russia.
| | - Valentin V Novikov
- Laboratory of Nuclear Magnetic Resonances, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, Moscow, 119991, Russia
| | - Tseimur M Aliyeu
- Center for Molecule Composition Studies, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, Moscow, 119991, Russia
| | - Alexander A Pavlov
- Laboratory of Nuclear Magnetic Resonances, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, Moscow, 119991, Russia
| | - Nikolay E Shepel
- Laboratory of Photoactive Supramolecular Systems, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, Moscow, 119991, Russia.
| | - Olga A Fedorova
- Laboratory of Photoactive Supramolecular Systems, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, Moscow, 119991, Russia.
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Yan L, Su C, Shen L, Lv M, Liu C, Liu X, Liu G, Li J, Ye Z. The design and properties study of a novel styryl‐pyridinium‐based water‐soluble fluorescent copolymer as tracing agent. J Appl Polym Sci 2019. [DOI: 10.1002/app.47062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Liwei Yan
- College of Chemistry and Chemical EngineeringSouthwest Petroleum University 8# Xindu Road, Xindu, Chengdu Sichuan 610500 China
| | - Chunjiao Su
- College of Chemistry and Chemical EngineeringSouthwest Petroleum University 8# Xindu Road, Xindu, Chengdu Sichuan 610500 China
| | - Linghong Shen
- College of Chemistry and Chemical EngineeringSouthwest Petroleum University 8# Xindu Road, Xindu, Chengdu Sichuan 610500 China
| | - Mingqian Lv
- College of Chemistry and Chemical EngineeringSouthwest Petroleum University 8# Xindu Road, Xindu, Chengdu Sichuan 610500 China
| | - Cheng Liu
- College of Chemistry and Chemical EngineeringSouthwest Petroleum University 8# Xindu Road, Xindu, Chengdu Sichuan 610500 China
| | - Xuan Liu
- College of Chemistry and Chemical EngineeringSouthwest Petroleum University 8# Xindu Road, Xindu, Chengdu Sichuan 610500 China
| | - Guangsheng Liu
- College of Chemistry and Chemical EngineeringSouthwest Petroleum University 8# Xindu Road, Xindu, Chengdu Sichuan 610500 China
| | - Jialing Li
- College of Chemistry and Chemical EngineeringSouthwest Petroleum University 8# Xindu Road, Xindu, Chengdu Sichuan 610500 China
| | - Zhongbin Ye
- College of Chemistry and Chemical EngineeringSouthwest Petroleum University 8# Xindu Road, Xindu, Chengdu Sichuan 610500 China
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Asadi Z, Nasrollahi N. The effect of metal and substituent on DNA binding, cleavage activity, and cytotoxicity of new synthesized Schiff base ligands and Zn(II) complex. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2017.06.137] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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Asadi Z, Nasrollahi N, Karbalaei-Heidari H, Eigner V, Dusek M, Mobaraki N, Pournejati R. Investigation of the complex structure, comparative DNA-binding and DNA cleavage of two water-soluble mono-nuclear lanthanum(III) complexes and cytotoxic activity of chitosan-coated magnetic nanoparticles as drug delivery for the complexes. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2017; 178:125-135. [PMID: 28178588 DOI: 10.1016/j.saa.2017.01.037] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2016] [Revised: 01/11/2017] [Accepted: 01/18/2017] [Indexed: 06/06/2023]
Abstract
Two water-soluble mono-nuclear macrocyclic lanthanum(III) complexes of 2,6-diformyl-4-methylphenol with 1,3-diamino-2-propanol (C1) or 1,3-propylenediamine (C2) were synthesized and characterized by UV-Vis, FT-IR, 13C and 1H NMR spectroscopy and elemental analysis. C1 complex was structurally characterized by single-crystal X-ray diffraction, which revealed that the complex was mononuclear and ten-coordinated. The coordination sites around lanthanum(III) were occupied with a five-dentate ligand, two bidentate nitrates, and one water molecule. The interaction of complexes with DNA was studied in buffered aqueous solution at pH7.4. UV-Vis absorption spectroscopy, emission spectroscopy, circular dichroism (CD) and viscometric measurements provided clear evidence of the intercalation mechanism of binding. The obtained intrinsic binding constants (Kb) 9.3×103 and 1.2×103M-1 for C1 and C2, respectively confirmed that C1 is better intercalator than C2. The DNA docking studies suggested that the complexes bind with DNA in a groove binding mode with the binding affinity of C1>C2. Moreover, agarose gel electrophoresis study of the DNA-complex for both compounds revealed that the C1 intercalation cause ethidium bromide replacement in a competitive manner which confirms the suggested mechanism of binding. Finally, the anticancer experiments for the treated cancerous cell lines with both synthesized compounds show that these hydrophilic molecules need a suitable carrier to pass through the hydrophobic nature of cell membrane efficiently.
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Affiliation(s)
- Zahra Asadi
- Department of Chemistry, Faculty of Sciences, Shiraz University, Shiraz 71454, Iran.
| | - Neda Nasrollahi
- Department of Chemistry, Faculty of Sciences, Shiraz University, Shiraz 71454, Iran
| | - Hamidreza Karbalaei-Heidari
- Molecular Biotechnology Laboratory, Department of Biology, Faculty of Sciences, Shiraz University, Shiraz 71454, Iran
| | - Vaclav Eigner
- Institute of Physics ASCR, v.v.i, Na Slovance 2, Praha 821182, Czech Republic
| | - Michal Dusek
- Institute of Physics ASCR, v.v.i, Na Slovance 2, Praha 821182, Czech Republic
| | - Nabiallah Mobaraki
- Department of Chemistry, Faculty of Sciences, Shiraz University, Shiraz 71454, Iran
| | - Roya Pournejati
- Molecular Biotechnology Laboratory, Department of Biology, Faculty of Sciences, Shiraz University, Shiraz 71454, Iran
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Synthesis and bioactive evaluations of novel benzotriazole compounds as potential antimicrobial agents and the interaction with calf thymus DNA. J CHEM SCI 2015. [DOI: 10.1007/s12039-015-0991-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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