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Zhang D, Kishimoto N. Theoretical Analysis of Coordination Geometries in Transition Metal-Histidine Complexes Using Quantum Chemical Calculations. Molecules 2024; 29:3003. [PMID: 38998956 PMCID: PMC11243457 DOI: 10.3390/molecules29133003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2024] [Revised: 06/13/2024] [Accepted: 06/22/2024] [Indexed: 07/14/2024] Open
Abstract
A theoretical investigation utilizing density functional theory (DFT) calculations was conducted to explore the coordination complexes formed between histidine (His) ligands and various divalent transition metal ions (Mn2+, Fe2+, Co2+, Ni2+, Cu2+, and Zn2+). Conformational exploration of the His ligand was initially performed to assess its stability upon coordination. Both 1:1 and 1:2 of metal-to-ligand complexes were scrutinized to elucidate their structural features and the relative stability of the complexes. This study examined the ability of His to act as a bidentate or tridentate coordinating ligand, along with the differences in coordination geometry when solvent effects were incorporated. The reduced density gradient (RDG) analysis and local electron attachment energy (LEAE) analysis were employed to elucidate the interaction planes and the nucleophilic and electrophilic properties. The electronic properties were analyzed through electrostatic potential (ESP) maps and natural population analysis (NPA) of atomic charge distributions. This computational study provides valuable insights into the diverse coordination modes of His and its interactions with divalent transition metal ions, contributing to a better understanding of the role of this amino acid ligand in the formation of transition metal complexes. The findings can aid in the design and construction of self-assembled structures involving His-metal coordination.
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Affiliation(s)
- Dapeng Zhang
- Department of Chemistry, Graduate School of Science, Tohoku University, 6-3, Aoba, Aramaki, Aoba-ku, Sendai 980-8578, Japan
| | - Naoki Kishimoto
- Department of Chemistry, Graduate School of Science, Tohoku University, 6-3, Aoba, Aramaki, Aoba-ku, Sendai 980-8578, Japan
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2
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Chai L, Li T, Liu X, Dai S, Liu X, Sun Y, Pan J. Rapid recovery of high pure PbO from spent lead acid battery without desulfation and chemicals consumption method. WASTE MANAGEMENT (NEW YORK, N.Y.) 2024; 184:52-62. [PMID: 38795540 DOI: 10.1016/j.wasman.2024.05.024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2024] [Revised: 05/06/2024] [Accepted: 05/19/2024] [Indexed: 05/28/2024]
Abstract
The direct recovery of high-purity PbO from spent lead paste without a pre-desulfation process has significant industrial promise. Herein, we propose a recyclable, ultra-fast, and high value-added closed-loop of high-purity PbO recovery process by intensive multidentate coordination of histidine with crude 2PbO·PbSO4 by a rotating liquid-film (RLF) reactor and CO2 carbonation-dissociation. Parameter optimizations and kinetic calculations show the leaching time is shortened from 40 min to 60 s with 99.14 % leaching rate and 99.99 % PbO purity by internal diffusion control, where the RLF reactor promotes mass transfer and reaction rates by instantly renewing the surface of crude 2PbO·PbSO4. Furthermore, all 5 batches reveal that the separation of SO42- ions from the regenerated mother liquid with Ba(OH)2 significantly improves the recycling rate of the mother liquid and high-purity PbO product. This new strategy reveals a bright prospect of a highly efficient, high value-added, and environmentally friendly recycling route for solid waste resources.
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Affiliation(s)
- Lulu Chai
- State Key Laboratory of Chemical Resource Engineering, College of Chemistry, Beijing University of Chemical Technology, Beijing 100029, China
| | - Tian Li
- State Key Laboratory of Chemical Resource Engineering, College of Chemistry, Beijing University of Chemical Technology, Beijing 100029, China
| | - Xiaowei Liu
- Chilwee Power Group, Changxing 313100, Zhejiang, China
| | - Shaozhen Dai
- Chilwee Power Group, Changxing 313100, Zhejiang, China
| | - Xiaoguang Liu
- State Key Laboratory of Chemical Resource Engineering, College of Chemistry, Beijing University of Chemical Technology, Beijing 100029, China
| | - Yanzhi Sun
- State Key Laboratory of Chemical Resource Engineering, College of Chemistry, Beijing University of Chemical Technology, Beijing 100029, China
| | - Junqing Pan
- State Key Laboratory of Chemical Resource Engineering, College of Chemistry, Beijing University of Chemical Technology, Beijing 100029, China.
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Liu Y, Yu J, Sun Y. Immobilized Dipeptidase in Manganese Ion-Loaded Polyethylenimine-Induced Calcium Phosphate Nanocrystals for Carnosine Synthesis. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2024; 40:10261-10269. [PMID: 38693862 DOI: 10.1021/acs.langmuir.4c00759] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2024]
Abstract
Carnosine is a natural bioactive dipeptide with important physiological functions widely used in food and medicine. Dipeptidase (PepD) from Serratia marcescens can catalyze the reverse hydrolytic reaction of β-alanine with l-histidine to synthesize carnosine in the presence of Mn2+. However, it remains challenging to practice carnosine biosynthesis due to the low activity and high cost of the enzyme. Therefore, the development of biocatalysts with high activity and stability is of significance for carnosine synthesis. Here, we proposed to chelate Mn2+ to polyethylenimine (PEI) that induced rapid formation of calcium phosphate nanocrystals (CaP), and Mn-PEI@CaP was used for PepD immobilization via electrostatic interaction. Mn-PEI@CaP as the carrier enhanced the stability of the immobilized enzyme. Moreover, Mn2+ loaded in the carrier acted as an in situ activator of the immobilized PepD for facilitating the biocatalytic process of carnosine synthesis. The as-prepared immobilized enzyme (PepD-Mn-PEI@CaP) kept similar activity with free PepD plus Mn2+ (activity recovery, 102.5%), while exhibiting elevated thermal stability and pH tolerance. Moreover, it exhibited about two times faster carnosine synthesis than the free PepD system. PepD-Mn-PEI@CaP retained 86.8% of the original activity after eight cycles of batch catalysis without the addition of free Mn2+ ions during multiple cycles. This work provides a new strategy for the co-immobilization of PepD and Mn2+, which greatly improves the operability of the biocatalysis and demonstrates the potential of the immobilized PepD system for efficient carnosine synthesis.
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Affiliation(s)
- Yujia Liu
- Department of Biochemical Engineering, School of Chemical Engineering and Technology and Key Laboratory of Systems Bioengineering and Frontiers Science Center for Synthetic Biology (Ministry of Education), Tianjin University, Tianjin 300350, China
| | - Jie Yu
- Department of Biochemical Engineering, School of Chemical Engineering and Technology and Key Laboratory of Systems Bioengineering and Frontiers Science Center for Synthetic Biology (Ministry of Education), Tianjin University, Tianjin 300350, China
| | - Yan Sun
- Department of Biochemical Engineering, School of Chemical Engineering and Technology and Key Laboratory of Systems Bioengineering and Frontiers Science Center for Synthetic Biology (Ministry of Education), Tianjin University, Tianjin 300350, China
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Intramolecular interactions (O-H∙∙∙O, C-H∙∙∙N, N-H∙∙∙π) in isomers of neutral, cation, and anion dopamine molecules: A DFT study on the influence of solvents (water and ethanol). J Mol Model 2023; 29:67. [PMID: 36773132 DOI: 10.1007/s00894-023-05466-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2022] [Accepted: 02/01/2023] [Indexed: 02/12/2023]
Abstract
CONTEXT Dopamine (DA) is one of the most important neurotransmitters associated with numerous neural disorders. This investigation reports the intramolecular interactions present in the isomers of neutral (DA0), anionic (DA-), and cationic (DA+) dopamine isomers in gas, water, and ethanol mediums. Neutral and anion isomers have O-H∙∙∙O, C-H∙∙∙N intramolecular hydrogen bonds and N-H∙∙∙π interactions. All the interactions are electrostatic in nature. Isomers of cation dopamine show no intramolecular interactions in the solvent. Natural charges from natural bond orbital (NBO) analysis show that O-H∙∙∙O bonds and the N-H∙∙∙π interactions are the most and least polar, respectively. 1H NMR study reveals the inverse linear correlation between shielding constant and electron density in a solvent medium. HOMO-LUMO energy gap indicates higher stability for neutral and cationic forms of dopamine isomers in water and ethanol medium. METHODS We have optimized all the structural forms of dopamine molecule using the Becke three hybrid exchange and Lee-Yang-Parr correlation functional with Grimme's dispersion correction, B3LYP-D3(BJ), and aug-cc-pVTZ basis set using the Gaussian16 software. Vibrational frequency analysis with no imaginary frequencies confirms the nature of global minima. The solvent studies (water and ethanol) were carried out using the SCRF keyword and the polarisable continuum model (PCM) of Miertus and Tomasi. NBO analysis and NMR studies were also performed for all conformers. Topology analysis was explored using the software Multiwfn.
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Arputharaj E, Singh S, Pasupuleti RR, Dahms HU, Huang YL. Visible fluorescent sensing of Cu2+ ions in urine by reusable chitosan/l-histidine–stabilized silicon nanoparticles integrated thin layer chromatography sheet. Anal Chim Acta 2022; 1231:340418. [DOI: 10.1016/j.aca.2022.340418] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Revised: 09/12/2022] [Accepted: 09/16/2022] [Indexed: 11/30/2022]
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Liu X, Wu M, Li C, Yu P, Feng S, Li Y, Zhang Q. Interaction Structure and Affinity of Zwitterionic Amino Acids with Important Metal Cations (Cd 2+, Cu 2+, Fe 3+, Hg 2+, Mn 2+, Ni 2+ and Zn 2+) in Aqueous Solution: A Theoretical Study. Molecules 2022; 27:molecules27082407. [PMID: 35458605 PMCID: PMC9028192 DOI: 10.3390/molecules27082407] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2022] [Revised: 03/31/2022] [Accepted: 04/06/2022] [Indexed: 01/25/2023] Open
Abstract
Heavy metals are non-biodegradable and carcinogenic pollutants with great bio-accumulation potential. Their ubiquitous occurrence in water and soils has caused serious environmental concerns. Effective strategies that can eliminate the heavy metal pollution are urgently needed. Here the adsorption potential of seven heavy metal cations (Cd2+, Cu2+, Fe3+, Hg2+, Mn2+, Ni2+ and Zn2+) with 20 amino acids was systematically investigated with Density Functional Theory method. The binding energies calculated at B3LYP-D3/def2TZVP level showed that the contribution order of amino acid side chains to the binding affinity was carboxyl > benzene ring > hydroxyl > sulfhydryl > amino group. The affinity order was inversely proportional to the radius and charge transfer of heavy metal cations, approximately following the order of: Ni2+ > Fe3+ > Cu2+ > Hg2+ > Zn2+ > Cd2+ > Mn2+. Compared to the gas-phase in other researches, the water environment has a significant influence on structures and binding energies of the heavy metal and amino acid binary complexes. Collectively, the present results will provide a basis for the design of a chelating agent (e.g., adding carboxyl or a benzene ring) to effectively remove heavy metals from the environment.
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Affiliation(s)
- Xinning Liu
- Environment Research Institute, Shandong University, Qingdao 266237, China; (X.L.); (Q.Z.)
| | - Menghan Wu
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China; (M.W.); (P.Y.)
| | - Chenchen Li
- School of Management, Ocean University of China, Qingdao 266101, China;
| | - Peng Yu
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing 100084, China; (M.W.); (P.Y.)
| | - Shanshan Feng
- School of Chemistry and Chemical Engineering, Shandong University, Jinan 250100, China;
| | - Yanwei Li
- Environment Research Institute, Shandong University, Qingdao 266237, China; (X.L.); (Q.Z.)
- Shenzhen Research Institute, Shandong University, Shenzhen 518057, China
- Correspondence: ; Tel.: +86-0532-58631990
| | - Qingzhu Zhang
- Environment Research Institute, Shandong University, Qingdao 266237, China; (X.L.); (Q.Z.)
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Milach OA, Mel’sitova IV, Yurkova IL. Pro(anti)oxidant Properties of Amino Acids and Their Derivatives in The Presence of Fe2+ and Cu2+ Ions. RUSS J GEN CHEM+ 2020. [DOI: 10.1134/s1070363220060080] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Franklin LM, Walker SM, Hill G. A DFT study of isolated histidine interactions with metal ions (Ni 2+, Cu 2+, Zn 2+) in a six-coordinated octahedral complex. J Mol Model 2020; 26:116. [PMID: 32377871 DOI: 10.1007/s00894-020-04389-2] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2020] [Accepted: 04/22/2020] [Indexed: 10/24/2022]
Abstract
Understanding the role that metal ions play in biological and material processes is critical to addressing a number of diseases and problems facing society today. There have been a number of studies that have begun to approach this concern from a myriad of different perspectives. However, there is still a considerable lack of understanding concerning the mechanisms and structures of metal-related problems, specifically biological and medical-related issues. Understanding the mechanism of ingestion and uptake of metals into the human body is critical to addressing many diseases such as Alzheimer's and certain types of cancers. Using computational techniques, this work adds to the overall understanding of metal interactions with proteins by focusing on metal ion interactions with the amino acid, histidine, one of the most common sites of metal attachment. In this work, the geometries of single and dual histidines attached to Ni2+, Cu2+, and Zn2+ ions at B3LYP/6-311G(d) are presented. The results show stable octahedral complexes associated with each of the metal ions. Free energy calculations suggest that all three complexes are spontaneous in the formation of the dual histidine-metal complexes. Nickel and copper are spontaneous in the formation of the single histidine complex, although the copper complex undergoes slight geometric changes. Zinc is found to be nonspontaneous in forming the single histidine complex. Finally, the reduction potential of the single histidine-metal complex is presented. All of the complexes show positive reduction potentials. However, the nickel and copper complexes undergo geometrical changes to adopt a square planar conformation. Graphical abstract The impact of metal ions in biological systems is of great importance to understanding a diverse number of diseases. By understanding the fundamentals of select ions complexed with histidines, greater understanding of the mechanisms of actions these ions play in health may be elucidated. This work presents initial structures and thermodynamics of histidine complexes with nickel, copper, and zinc metal ions.
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Affiliation(s)
- Latasha M Franklin
- Department of Chemistry, Physics, and Atmospheric Sciences, Jackson State University, Jackson, MS, 39217, USA
| | - Sharnek M Walker
- Department of Chemistry, Physics, and Atmospheric Sciences, Jackson State University, Jackson, MS, 39217, USA
| | - Glake Hill
- Department of Chemistry, Physics, and Atmospheric Sciences, Jackson State University, Jackson, MS, 39217, USA.
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Nguyen LT, Ho WF, Yang KL. Copper-tripeptides (cuzymes) with peroxidase-mimetic activity. RSC Adv 2020; 10:17408-17415. [PMID: 35515638 PMCID: PMC9053452 DOI: 10.1039/d0ra02472d] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2020] [Accepted: 04/24/2020] [Indexed: 11/21/2022] Open
Abstract
Peroxidases are enzymes that use hydrogen peroxide to oxidize substrates such as 2,2-azino-bis(3-ethylbenzothiazoline-6-sulfonic acid) (ATBS). In this study, we showed that copper-tripeptide complexes ("cuzymes") also exhibited peroxidase-like activities. Different cuzymes could be formed by using various tripeptide ligands, such as GGG, GGH or HGG. However, the peroxidase-like activity of cuzymes depends on the sequence of the tripeptide (Cu-GGG > Cu-HGG > Cu-GGH). When ABTS was used as the substrate, the activity of Cu-GGG was 326 ± 1.5 U mg-1 which was 2.5 times higher than that of horseradish peroxidase (HRP). Copper-tripeptide complexes were also used to degrade trypan blue dye. By using 0.2 mM Cu-GGG and 0.2% H2O2, 200 μM trypan blue could be degraded in 15 min at 50 °C. The degradation reaction followed second-order kinetics; the reaction rate was proportional to both H2O2 concentration and the copper-tripeptide concentration, but it was independent of the trypan blue concentration. Because copper-tripeptides catalyzed the oxidation reactions involving H2O2 effectively, they may have potential applications in biochemical assays and environmental remediation.
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Affiliation(s)
- Le Truc Nguyen
- Department of Chemical and Biomolecular Engineering, National University of Singapore 4 Engineering Drive 4 Singapore 117585
| | - Wing Fat Ho
- Department of Chemical and Biomolecular Engineering, National University of Singapore 4 Engineering Drive 4 Singapore 117585
| | - Kun-Lin Yang
- Department of Chemical and Biomolecular Engineering, National University of Singapore 4 Engineering Drive 4 Singapore 117585
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Saranya V, Shankar R, Vijayakumar S. Structural exploration of viral matrix protein 40 interaction with the transition metal ions (Ag+ and Cu2+). J Biomol Struct Dyn 2018; 37:2875-2896. [DOI: 10.1080/07391102.2018.1498803] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- V. Saranya
- Department of Physics, Bharathiar University, Coimbatore, India
| | - R. Shankar
- Department of Physics, Bharathiar University, Coimbatore, India
| | - S. Vijayakumar
- Department of Medical Physics, Bharathiar University, Coimbatore, India
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Hybrid DFT study on non-covalent interactions and their influence on pKa's of magnesium-carboxylate complexes. J Mol Graph Model 2018; 85:13-24. [DOI: 10.1016/j.jmgm.2018.07.004] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2018] [Revised: 06/18/2018] [Accepted: 07/09/2018] [Indexed: 01/15/2023]
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Umadevi P, Senthilkumar L. Metal-interacted histidine dimer: an ETS-NOCV and XANES study. RSC Adv 2016. [DOI: 10.1039/c6ra01264g] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
We have analyzed the metal coordination in a histidine dimer, hydrated with a water molecule, based on the extended transition state scheme with the theory of natural orbitals for chemical valence (ETS-NOCV).
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Affiliation(s)
- P. Umadevi
- Department of Physics
- Bharathiar University
- Coimbatore
- India
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Umadevi V, Mano Priya A, Senthilkumar L. DFT study on the tautomerism of organic linker 1H-imidazole-4,5-tetrazole (HIT). COMPUT THEOR CHEM 2015. [DOI: 10.1016/j.comptc.2015.06.022] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Sasmal M, Maiti TK, Bhattacharyya TK. Ultra-Low Level Detection of L-Histidine Using Solution-Processed ZnO Nanorod on Flexible Substrate. IEEE Trans Nanobioscience 2015; 14:634-40. [PMID: 25993704 DOI: 10.1109/tnb.2015.2430753] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
This work demonstrates a novel label free and sensitive approach for the detection of L-histidine. This is a simple and reliable method for ultra-low level detection of L-histidine. All solution processed synthesizing technique was utilized to develop such type of detection scheme. Silicon substrate was replaced by normal transparent sheet to make it more facile and cost-effective detection technique. Fabricated device for L-histidine detection works upon the variation of current through the ZnO nanorod with L-histidine concentration. Operation principle strongly depends upon the electron charge transfer between metal cation and L-histidine inside the chelating complex. Morphological, structural and optical characterization of solution processed synthesized ZnO nanorod (ZnO NR) was carried out prior to sensor device fabrication. Our sensor device exhibits the sensitivity around 0.86 nA/fM and lower limit of detection (LOD) ∼ 0.1 fM(S/N=3).
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