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Marinaro C, Lettieri G, Chianese T, Bianchi AR, Zarrelli A, Palatucci D, Scudiero R, Rosati L, De Maio A, Piscopo M. Exploring the molecular and toxicological mechanism associated with interactions between heavy metals and the reproductive system of Mytilus galloprovincialis. Comp Biochem Physiol C Toxicol Pharmacol 2024; 275:109778. [PMID: 37866452 DOI: 10.1016/j.cbpc.2023.109778] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/20/2023] [Revised: 10/06/2023] [Accepted: 10/16/2023] [Indexed: 10/24/2023]
Abstract
A large number of heavy metals resulted toxic to the reproductive system, but invertebrate infertility has been poorly explored, and above all, there are limited molecular, cellular and toxicological studies. In the present work, we exposed Mytilus galloprovincialis to three individual metal chlorides (CuCl2 15 μM, CdCl2 1.5 μM, NiCl2 15 μM) and their mixture for 24 h, to evaluate the effects on the protamine-like proteins (PLs), sperm DNA and on their interaction in the formation of sperm chromatin. Under all exposure conditions, but particularly after exposure to the metals mix, relevant changes in the electrophoretic pattern, by AU-PAGE and SDS-PAGE, and in fluorescence spectroscopy measurements of PLs were shown. In addition, alterations in DNA binding of these proteins were observed by Electrophoretic Mobility Shift Assay (EMSA) and through their release from sperm nuclei. Moreover, there was evidence of increased accessibility of micrococcal nuclease to sperm chromatin, which was also confirmed by toluidine blue staining. Furthermore, morphological analyses indicated severe gonadal impairments which was also corroborated by increased PARP expression, by Western blotting, and sperm DNA fragmentation, by comet assay. Finally, we investigated the expression of stress genes, gst, hsp70 and mt10, in gonadal tissue. The latter investigations also showed that exposure to this metals mix was more harmful than exposure to the individual metals tested. The present results suggest that these metals and in particular their mixture could have a negative impact on the reproductive fitness of M. galloprovincialis. Based on these evidences, we propose a molecular mechanism.
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Affiliation(s)
- Carmela Marinaro
- Department of Biology, University of Naples Federico II, Via Cinthia, 21, 80126 Naples, Italy
| | - Gennaro Lettieri
- Department of Biology, University of Naples Federico II, Via Cinthia, 21, 80126 Naples, Italy
| | - Teresa Chianese
- Department of Biology, University of Naples Federico II, Via Cinthia, 21, 80126 Naples, Italy
| | - Anna Rita Bianchi
- Department of Biology, University of Naples Federico II, Via Cinthia, 21, 80126 Naples, Italy
| | - Armando Zarrelli
- Department of Chemical Sciences, University of Naples Federico II, 80126 Naples, Italy
| | - Domenico Palatucci
- Department of Biology, University of Naples Federico II, Via Cinthia, 21, 80126 Naples, Italy
| | - Rosaria Scudiero
- Department of Biology, University of Naples Federico II, Via Cinthia, 21, 80126 Naples, Italy
| | - Luigi Rosati
- Department of Biology, University of Naples Federico II, Via Cinthia, 21, 80126 Naples, Italy
| | - Anna De Maio
- Department of Biology, University of Naples Federico II, Via Cinthia, 21, 80126 Naples, Italy
| | - Marina Piscopo
- Department of Biology, University of Naples Federico II, Via Cinthia, 21, 80126 Naples, Italy.
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2
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Śmiłowicz D, Eisenberg S, LaForest R, Whetter J, Hariharan A, Bordenca J, Johnson CJ, Boros E. Metal-Mediated, Autolytic Amide Bond Cleavage: A Strategy for the Selective, Metal Complexation-Catalyzed, Controlled Release of Metallodrugs. J Am Chem Soc 2023; 145:16261-16270. [PMID: 37434328 PMCID: PMC10530410 DOI: 10.1021/jacs.3c05492] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/13/2023]
Abstract
Activation of metalloprodrugs or prodrug activation using transition metal catalysts represents emerging strategies for drug development; however, they are frequently hampered by poor spatiotemporal control and limited catalytic turnover. Here, we demonstrate that metal complex-mediated, autolytic release of active metallodrugs can be successfully employed to prepare clinical grade (radio-)pharmaceuticals. Optimization of the Lewis-acidic metal ion, chelate, amino acid linker, and biological targeting vector provides means to release peptide-based (radio-)metallopharmaceuticals in solution and from the solid phase using metal-mediated, autolytic amide bond cleavage (MMAAC). Our findings indicate that coordinative polarization of an amide bond by strong, trivalent Lewis acids such as Ga3+ and Sc3+ adjacent to serine results in the N, O acyl shift and hydrolysis of the corresponding ester without dissociation of the corresponding metal complex. Compound [68Ga]Ga-10, incorporating a cleavable and noncleavable functionalization, was used to demonstrate that only the amide bond-adjacent serine effectively triggered hydrolysis in solution and from the solid phase. The corresponding solid-phase released compound [68Ga]Ga-8 demonstrated superior in vivo performance in a mouse tumor model compared to [68Ga]Ga-8 produced using conventional, solution-phase radiolabeling. A second proof-of-concept system, [67Ga]Ga-17A (serine-linked) and [67Ga]Ga-17B (glycine-linked) binding to serum albumin via the incorporated ibuprofen moiety, was also synthesized. These constructs demonstrated that complete hydrolysis of the corresponding [68Ga]Ga-NOTA complex from [67Ga]Ga-17A can be achieved in naïve mice within 12 h, as traceable in urine and blood metabolites. The glycine-linked control [68Ga]Ga-17B remained intact. Conclusively, MMAAC provides an attractive tool for selective, thermal, and metal ion-mediated control of metallodrug activation compatible with biological conditions.
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Affiliation(s)
- Dariusz Śmiłowicz
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794, United States
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Shawn Eisenberg
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794, United States
| | - Rochelle LaForest
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794, United States
| | - Jennifer Whetter
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794, United States
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Annapoorani Hariharan
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794, United States
| | - Jake Bordenca
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794, United States
| | - Christopher J Johnson
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794, United States
| | - Eszter Boros
- Department of Chemistry, Stony Brook University, 100 Nicolls Road, Stony Brook, New York 11794, United States
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
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3
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Negi S, Imanishi M, Hamori M, Kawahara-Nakagawa Y, Nomura W, Kishi K, Shibata N, Sugiura Y. The past, present, and future of artificial zinc finger proteins: design strategies and chemical and biological applications. J Biol Inorg Chem 2023; 28:249-261. [PMID: 36749405 PMCID: PMC9903285 DOI: 10.1007/s00775-023-01991-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2022] [Accepted: 01/25/2023] [Indexed: 02/08/2023]
Abstract
Zinc finger proteins are abundant in the human proteome and are responsible for a variety of functions. The domains that constitute zinc finger proteins are compact spherical structures, each comprising approximately 30 amino acid residues, but they also have precise molecular factor functions: zinc binding and DNA recognition. Due to the biological importance of zinc finger proteins and their unique structural and functional properties, many artificial zinc finger proteins have been created and are expected to improve their functions and biological applications. In this study, we review previous studies on the redesign and application of artificial zinc finger proteins, focusing on the experimental results obtained by our research group. In addition, we systematically review various design strategies used to construct artificial zinc finger proteins and discuss in detail their potential biological applications, including gene editing. This review will provide relevant information to researchers involved or interested in the field of artificial zinc finger proteins as a potential new treatment for various diseases.
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Affiliation(s)
- Shigeru Negi
- Faculty of Pharmaceutical Science, Doshisha Women's University Kyotanabe, Kyoto, 610-0395, Japan.
| | - Miki Imanishi
- Institute for Chemical Research, Kyoto University, Uji, Kyoto, 611-0011, Japan
| | - Mami Hamori
- Faculty of Pharmaceutical Science, Doshisha Women's University Kyotanabe, Kyoto, 610-0395, Japan
| | - Yuka Kawahara-Nakagawa
- Graduate School of Life Science, University of Hyogo, 3-2-1 Kouto, Kamigori-Cho, Ako-Gun, Hyogo, 678-1297, Japan
| | - Wataru Nomura
- Graduate School of Biomedical and Health Sciences, Hiroshima University, 1-2-3 Kasumi Minami-Ku, Hiroshima, 734-8553, Japan
| | - Kanae Kishi
- Graduate School of Biomedical and Health Sciences, Hiroshima University, 1-2-3 Kasumi Minami-Ku, Hiroshima, 734-8553, Japan
| | - Nobuhito Shibata
- Faculty of Pharmaceutical Science, Doshisha Women's University Kyotanabe, Kyoto, 610-0395, Japan
| | - Yukio Sugiura
- Faculty of Pharmaceutical Science, Doshisha Women's University Kyotanabe, Kyoto, 610-0395, Japan
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4
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A Molecular Mechanism to Explain the Nickel-Induced Changes in Protamine-like Proteins and Their DNA Binding Affecting Sperm Chromatin in Mytilus galloprovincialis: An In Vitro Study. Biomolecules 2023; 13:biom13030520. [PMID: 36979455 PMCID: PMC10046793 DOI: 10.3390/biom13030520] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2022] [Revised: 02/03/2023] [Accepted: 03/09/2023] [Indexed: 03/18/2023] Open
Abstract
Nickel is associated with reproductive toxicity, but little is known about the molecular mechanisms of nickel-induced effects on sperm chromatin and protamine-like proteins (PLs). In the present work, we analyzed PLs from Mytilus galloprovincialis by urea-acetic acid polyacrylamide gel electrophoresis (AU-PAGE) and SDS-PAGE and assessed their binding to DNA by Electrophoretic Mobility Shift Assay (EMSA) after exposing mussels to 5, 15, and 35 µM NiCl2 for 24 h. In addition, a time course of digestion with MNase and release of PLs from sperm nuclei by the NaCl gradient was performed. For all exposure doses, in AU-PAGE, there was an additional migrating band between PL-III and PL-IV, corresponding to a fraction of PLs in the form of peptides detected by SDS-PAGE. Alterations in DNA binding of PLs were observed by EMSA after exposure to 5 and 15 µM NiCl2, while, at all NiCl2 doses, increased accessibility of MNase to sperm chromatin was found. The latter was particularly relevant at 15 µM NiCl2, a dose at which increased release of PLII and PLIII from sperm nuclei and the highest value of nickel accumulated in the gonads were also found. Finally, at all exposure doses, there was also an increase in PARP expression, but especially at 5 µM NiCl2. A possible molecular mechanism for the toxic reproductive effects of nickel in Mytilus galloprovincialis is discussed.
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5
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Otaka A. Development of Naturally Inspired Peptide and Protein Chemistry. Chem Pharm Bull (Tokyo) 2022; 70:748-764. [DOI: 10.1248/cpb.c22-00623] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Akira Otaka
- Institute of Biomedical Sciences and Graduate School of Pharmaceutical Sciences, Tokushima University
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6
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Wezynfeld NE, Bonna AM, Płonka D, Bal W, Frączyk T. Ni(II) Ions May Target the Entire Melatonin Biosynthesis Pathway—A Plausible Mechanism of Nickel Toxicity. Molecules 2022; 27:molecules27175582. [PMID: 36080347 PMCID: PMC9458082 DOI: 10.3390/molecules27175582] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2022] [Revised: 08/25/2022] [Accepted: 08/28/2022] [Indexed: 11/30/2022] Open
Abstract
Nickel is toxic to humans. Its compounds are carcinogenic. Furthermore, nickel allergy is a severe health problem that affects approximately 10–20% of humans. The mechanism by which these conditions develop remains unclear, but it may involve the cleavage of specific proteins by nickel ions. Ni(II) ions cleave the peptide bond preceding the Ser/Thr-Xaa-His sequence. Such sequences are present in all four enzymes of the melatonin biosynthesis pathway, i.e., tryptophan 5-hydroxylase 1, aromatic-l-amino-acid decarboxylase, serotonin N-acetyltransferase, and acetylserotonin O-methyltransferase. Moreover, fragments prone to Ni(II) are exposed on surfaces of these proteins. Our results indicate that all four studied fragments undergo cleavage within tens of hours at pH 8.2 and 37 °C, corresponding with the conditions in the mitochondrial matrix. Since melatonin, a potent antioxidant and anti-inflammatory agent, is synthesized within the mitochondria of virtually all human cells, depleting its supply may be detrimental, e.g., by raising the oxidative stress level. Intriguingly, Ni(II) ions have been shown to mimic hypoxia through the stabilization of HIF-1α protein, but melatonin prevents the action of HIF-1α. Considering all this, the enzymes of the melatonin biosynthesis pathway seem to be a toxicological target for Ni(II) ions.
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Affiliation(s)
- Nina E. Wezynfeld
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, 02-106 Warsaw, Poland
- Faculty of Chemistry, Warsaw University of Technology, 00-664 Warsaw, Poland
| | - Arkadiusz M. Bonna
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, 02-106 Warsaw, Poland
- Department of Biochemistry, University of Cambridge, Cambridge CB2 1QW, UK
| | - Dawid Płonka
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, 02-106 Warsaw, Poland
| | - Wojciech Bal
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, 02-106 Warsaw, Poland
| | - Tomasz Frączyk
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, 02-106 Warsaw, Poland
- Correspondence:
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7
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Saikia J, Bhat VT, Potnuru LR, Redkar AS, Agarwal V, Ramakrishnan V. Minimalist De Novo Design of an Artificial Enzyme. ACS OMEGA 2022; 7:19131-19140. [PMID: 35721939 PMCID: PMC9202009 DOI: 10.1021/acsomega.1c07075] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Accepted: 05/16/2022] [Indexed: 06/15/2023]
Abstract
We employed a reductionist approach in designing the first heterochiral tripeptide that forms a robust heterogeneous short peptide catalyst similar to the "histidine brace" active site of lytic polysaccharide monooxygenases. The histidine brace is a conserved divalent copper ion-binding motif that comprises two histidine side chains and an amino group to create the T-shaped 3N geometry at the reaction center. The geometry parameters, including a large twist angle (73°) between the two imidazole rings of the model complex, are identical to those of native lytic polysaccharide monooxygenases (72.61°). The complex was synthesized and characterized as a structural and functional mimic of the histidine brace. UV-vis, vis-circular dichroism, Raman, and electron paramagnetic resonance spectroscopic analyses suggest a distorted square-pyramidal geometry with a 3N coordination at pH 7. Solution- and solid-state NMR results further confirm the 3N coordination in the copper center of the complex. The complex is pH-dependent and could catalyze the oxidation of benzyl alcohol in water to benzaldehyde with yields up to 82% in 3 h at pH 7 and above at 40 °C. The catalyst achieved 100% selectivity for benzaldehyde compared to conventional copper catalysis. The design of such a minimalist building block for functional soft materials with a pH switch can be a stepping stone in addressing needs for a cleaner and sustainable future catalyst.
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Affiliation(s)
- Jahnu Saikia
- Department
of Biosciences and Bioengineering, Indian
Institute of Technology Guwahati, Guwahati 781039, India
| | - Venugopal T. Bhat
- Organic
Synthesis and Catalysis Laboratory SRM Research Institute and Department
of Chemistry SRM Institute of Science and Technology, Kattankulathur 603203, Tamilnadu, India
| | - Lokeswara Rao Potnuru
- TIFR
Centre for Interdisciplinary Sciences, Tata
Institute of Fundamental Research Hyderabad, Hyderabad 500107, India
| | - Amay S. Redkar
- Department
of Biosciences and Bioengineering, Indian
Institute of Technology Guwahati, Guwahati 781039, India
| | - Vipin Agarwal
- TIFR
Centre for Interdisciplinary Sciences, Tata
Institute of Fundamental Research Hyderabad, Hyderabad 500107, India
| | - Vibin Ramakrishnan
- Department
of Biosciences and Bioengineering, Indian
Institute of Technology Guwahati, Guwahati 781039, India
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8
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Denda M, Otaka A. Advances in Preparation of Peptide and Protein Thioesters Aiming to Use in Medicinal Sciences. Chem Pharm Bull (Tokyo) 2022; 70:316-323. [DOI: 10.1248/cpb.c21-01019] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Affiliation(s)
- Masaya Denda
- Institute of Biomedical Sciences and Graduate School of Pharmaceutical Sciences, Tokushima University
| | - Akira Otaka
- Institute of Biomedical Sciences and Graduate School of Pharmaceutical Sciences, Tokushima University
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9
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Podobas EI, Gutowska-Owsiak D, Moretti S, Poznański J, Kulińczak M, Grynberg M, Gruca A, Bonna A, Płonka D, Frączyk T, Ogg G, Bal W. Ni 2+-Assisted Hydrolysis May Affect the Human Proteome; Filaggrin Degradation Ex Vivo as an Example of Possible Consequences. Front Mol Biosci 2022; 9:828674. [PMID: 35359602 PMCID: PMC8960189 DOI: 10.3389/fmolb.2022.828674] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2021] [Accepted: 01/31/2022] [Indexed: 01/28/2023] Open
Abstract
Deficiency in a principal epidermal barrier protein, filaggrin (FLG), is associated with multiple allergic manifestations, including atopic dermatitis and contact allergy to nickel. Toxicity caused by dermal and respiratory exposures of the general population to nickel-containing objects and particles is a deleterious side effect of modern technologies. Its molecular mechanism may include the peptide bond hydrolysis in X1-S/T-c/p-H-c-X2 motifs by released Ni2+ ions. The goal of the study was to analyse the distribution of such cleavable motifs in the human proteome and examine FLG vulnerability of nickel hydrolysis. We performed a general bioinformatic study followed by biochemical and biological analysis of a single case, the FLG protein. FLG model peptides, the recombinant monomer domain human keratinocytes in vitro and human epidermis ex vivo were used. We also investigated if the products of filaggrin Ni2+-hydrolysis affect the activation profile of Langerhans cells. We found X1-S/T-c/p-H-c-X2 motifs in 40% of human proteins, with the highest abundance in those involved in the epidermal barrier function, including FLG. We confirmed the hydrolytic vulnerability and pH-dependent Ni2+-assisted cleavage of FLG-derived peptides and FLG monomer, using in vitro cell culture and ex-vivo epidermal sheets; the hydrolysis contributed to the pronounced reduction in FLG in all of the models studied. We also postulated that Ni-hydrolysis might dysregulate important immune responses. Ni2+-assisted cleavage of barrier proteins, including FLG, may contribute to clinical disease associated with nickel exposure.
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Affiliation(s)
- Ewa Izabela Podobas
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland.,Medical Research Council Human Immunology Unit, National Institute for Health Research Oxford Biomedical Research Centre, Medical Research Council Weatherall Institute of Molecular Medicine, University of Oxford, Oxford, United Kingdom.,Institute of Genetics and Biotechnology, University of Warsaw, Warsaw, Poland
| | - Danuta Gutowska-Owsiak
- Medical Research Council Human Immunology Unit, National Institute for Health Research Oxford Biomedical Research Centre, Medical Research Council Weatherall Institute of Molecular Medicine, University of Oxford, Oxford, United Kingdom.,University of Gdansk, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk, Gdansk, Poland
| | - Sébastien Moretti
- SIB Swiss Institute of Bioinformatics, Vital-IT Team, Lausanne, Switzerland
| | - Jarosław Poznański
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
| | - Mariusz Kulińczak
- The Maria Sklodowska-Curie National Research Institute of Oncology, Warsaw, Poland
| | - Marcin Grynberg
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
| | - Aleksandra Gruca
- Institute of Informatics, Faculty of Automatic Control, Electronics and Computer Science, Silesian University of Technology, Gliwice, Poland
| | - Arkadiusz Bonna
- Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom
| | - Dawid Płonka
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
| | - Tomasz Frączyk
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
| | - Graham Ogg
- Medical Research Council Human Immunology Unit, National Institute for Health Research Oxford Biomedical Research Centre, Medical Research Council Weatherall Institute of Molecular Medicine, University of Oxford, Oxford, United Kingdom
| | - Wojciech Bal
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
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Hu Q, Jayasinghe-Arachchige VM, Prabhakar R. Degradation of a Main Plastic Pollutant Polyethylene Terephthalate by Two Distinct Proteases (Neprilysin and Cutinase-like Enzyme). J Chem Inf Model 2021; 61:764-776. [PMID: 33534993 DOI: 10.1021/acs.jcim.0c00797] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
In this DFT study, hydrolysis of polyethylene terephthalate (PET), a major cause of plastic pollution, by two distinct enzymes, neprilysin (NEP, a mononuclear metalloprotease) and cutinase-like enzyme (CLE, a serine protease), has been investigated. These enzymes utilize different mechanisms for the degradation of PET. NEP uses either the metal-bound hydroxide attack (MH) mechanism or reverse protonation (RP) mechanism, while CLE utilizes a general acid/base mechanism that includes acylation and deacylation processes. Additionally, the RP mechanism of NEP can proceed through three pathways, RP0, RP1, and RP2. The DFT calculations predict that, among all these mechanisms, the MH mechanism is the energetically most favorable one for the NEP enzyme. In comparison, CLE catalyzes this reaction with a significantly higher barrier. These results suggest that the Lewis acid and nucleophile activations provided by the Zn metal center of NEP are more effective than the hydrogen bonding interactions afforded by the catalytic Ser85-His180-Asp165 triad of CLE. They have provided intrinsic details regarding PET degradation and will pave the way for the design of efficient metal-based catalysts for this critical reaction.
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Affiliation(s)
- Qiaoyu Hu
- Department of Chemistry, University of Miami, Coral Gables, Florida 33146, United States
| | | | - Rajeev Prabhakar
- Department of Chemistry, University of Miami, Coral Gables, Florida 33146, United States
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11
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Wezynfeld NE, Frączyk T, Bonna A, Bal W. Peptide bond cleavage in the presence of Ni-containing particles. Metallomics 2020; 12:649-653. [PMID: 32393924 DOI: 10.1039/d0mt00070a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
NiO nanoparticles and non-stoichiometric black NiO were shown to be effective sources of Ni2+ ions causing sequence-selective peptide bond hydrolysis. NiO nanoparticles were as effective in this reaction as their molar equivalent of soluble Ni(ii) salt. These findings highlight the efficacy of delivery of toxic Ni2+ by these environmentally available particles.
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Affiliation(s)
- Nina Ewa Wezynfeld
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106 Warsaw, Poland.
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12
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The impact of a His-tag on DNA binding by RNA polymerase alpha-C-terminal domain from Helicobacter pylori. Protein Expr Purif 2020; 167:105541. [DOI: 10.1016/j.pep.2019.105541] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2019] [Revised: 11/04/2019] [Accepted: 11/18/2019] [Indexed: 12/24/2022]
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13
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Abd Elhameed HAH, Hajdu B, Jancsó A, Kéri A, Galbács G, Hunyadi-Gulyás É, Gyurcsik B. Modulation of the catalytic activity of a metallonuclease by tagging with oligohistidine. J Inorg Biochem 2020; 206:111013. [PMID: 32088594 DOI: 10.1016/j.jinorgbio.2020.111013] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2019] [Revised: 01/23/2020] [Accepted: 01/27/2020] [Indexed: 11/19/2022]
Abstract
Peptide tags are extensively used for affinity purification of proteins. In an optimal case, these tags can be completely removed from the purified protein by a specific protease mediated hydrolysis. However, the interactions of these tags with the target protein may also be utilized for the modulation of the protein function. Here we show that the C-terminal hexahistidine (6 × His) tag can influence the catalytic activity of the nuclease domain of the Colicin E7 metallonuclease (NColE7) used by E. coli to kill competing bacteria under stress conditions. This enzyme non-specifically cleaves the DNA that results in cytotoxicity. We have successfully cloned the genes of NColE7 protein and its R447G mutant into a modified pET-21a DNA vector fusing the affinity tag to the protein upon expression, which would be otherwise not possible in the absence of the gene of the Im7 inhibitory protein. This reflects the inhibitory effect of the 6 × His fusion tag on the nuclease activity, which proved to be a complex process via both coordinative and non-specific steric interactions. The modulatory effect of Zn2+ ion was observed in the catalytic activity experiments. The DNA cleavage ability of the 6 × His tagged enzyme was first enhanced by an increase of metal ion concentration, while high excess of Zn2+ ions caused a lower rate of the DNA cleavage. Modelling of the coordinative effect of the fusion tag by external chelators suggested ternary complex formation instead of removal of the metal ion from the active center.
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Affiliation(s)
- Heba A H Abd Elhameed
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720 Szeged, Hungary
| | - Bálint Hajdu
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720 Szeged, Hungary
| | - Attila Jancsó
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720 Szeged, Hungary
| | - Albert Kéri
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720 Szeged, Hungary
| | - Gábor Galbács
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720 Szeged, Hungary
| | - Éva Hunyadi-Gulyás
- Laboratory of Proteomics Research, Biological Research Centre, Temesvári krt. 62, H-6726 Szeged, Hungary
| | - Béla Gyurcsik
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720 Szeged, Hungary.
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14
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Frączyk T, Bonna A, Stefaniak E, Wezynfeld NE, Bal W. Peptide Bond Cleavage by Ni(II) Ions within the Nuclear Localization Signal Sequence. Chem Biodivers 2019; 17:e1900652. [PMID: 31869504 DOI: 10.1002/cbdv.201900652] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2019] [Accepted: 12/20/2019] [Indexed: 12/30/2022]
Abstract
Nickel is harmful to humans, being both carcinogenic and allergenic. However, the mechanisms of this toxicity are still unresolved. We propose that Ni(II) ions disintegrate proteins by hydrolysis of peptide bonds preceding the Ser/Thr-Xaa-His sequences. Such sequences occur in nuclear localization signals (NLSs) of human phospholipid scramblase 1, Sam68-like mammalian protein 2, and CLK3 kinase. We performed spectroscopic experiments showing that model nonapeptides derived from these NLSs bind Ni(II) at physiological pH. We also proved that these sequences are prone to Ni(II) hydrolysis. Thus, the aforementioned NLSs may be targets for nickel toxicity. This implies that Ni(II) ions disrupt the transport of some proteins from cytoplasm to cell nucleus.
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Affiliation(s)
- Tomasz Frączyk
- Department of Immunology, Transplantology and Internal Medicine, Medical University of Warsaw, Nowogrodzka 59, 02-006, Warsaw, Poland.,Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland
| | - Arkadiusz Bonna
- Department of Biochemistry, University of Cambridge, Tennis Court Road, CB2 1QW, Cambridge, United Kingdom
| | - Ewelina Stefaniak
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland
| | - Nina E Wezynfeld
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland.,Faculty of Chemistry, Warsaw University of Technology, Noakowskiego 3, 00-664, Warsaw, Poland
| | - Wojciech Bal
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland
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15
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Stefaniak E, Płonka D, Drew SC, Bossak-Ahmad K, Haas KL, Pushie MJ, Faller P, Wezynfeld NE, Bal W. The N-terminal 14-mer model peptide of human Ctr1 can collect Cu(ii) from albumin. Implications for copper uptake by Ctr1. Metallomics 2019; 10:1723-1727. [PMID: 30489586 DOI: 10.1039/c8mt00274f] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Human cells acquire copper primarily via the copper transporter 1 protein, hCtr1. We demonstrate that at extracellular pH 7.4 CuII is bound to the model peptide hCtr11-14via an ATCUN motif and such complexes are strong enough to collect CuII from albumin, supporting the potential physiological role of CuII binding to hCtr1.
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Affiliation(s)
- Ewelina Stefaniak
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106 Warsaw, Poland.
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16
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SNAC-tag for sequence-specific chemical protein cleavage. Nat Methods 2019; 16:319-322. [PMID: 30923372 PMCID: PMC6443254 DOI: 10.1038/s41592-019-0357-3] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2018] [Accepted: 02/06/2019] [Indexed: 11/25/2022]
Abstract
Biocompatible chemical protein cleavage methods have been long-sought to replace enzymatic cleavages, but have yet to be realized. Here, we report the development of the SNAC-tag (Sequence-specific Nickel Assisted Cleavage) to achieve sequence-specific chemical protein cleavage under biocompatible conditions with comparable efficiency to enzymes. We demonstrate that the SNAC-tag can be inserted before both water-soluble and membrane proteins to achieve fusion protein cleavage, even when enzymatic cleavages fail.
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17
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Abd Elhameed HAH, Hajdu B, Balogh RK, Hermann E, Hunyadi-Gulyás É, Gyurcsik B. Purification of proteins with native terminal sequences using a Ni(II)-cleavable C-terminal hexahistidine affinity tag. Protein Expr Purif 2019; 159:53-59. [PMID: 30905870 DOI: 10.1016/j.pep.2019.03.009] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2018] [Revised: 03/16/2019] [Accepted: 03/18/2019] [Indexed: 11/26/2022]
Abstract
The role of the termini of protein sequences is often perturbed by remnant amino acids after the specific protease cleavage of the affinity tags and/or by the amino acids encoded by the plasmid at/around the restriction enzyme sites used to insert the genes. Here we describe a method for affinity purification of a metallonuclease with its precisely determined native termini. First, the gene encoding the target protein is inserted into a newly designed cloning site, which contains two self-eliminating BsmBI restriction enzyme sites. As a consequence, the engineered DNA code of Ni(II)-sensitive Ser-X-His-X motif is fused to the 3'-end of the inserted gene followed by the gene of an affinity tag for protein purification purpose. The C-terminal segment starting from Ser mentioned above is cleaved off from purified protein by a Ni(II)-induced protease-like action. The success of the purification and cleavage was confirmed by gel electrophoresis and mass spectrometry, while structural integrity of the purified protein was checked by circular dichroism spectroscopy. Our new protein expression DNA construct is an advantageous tool for protein purification, when the complete removal of affinity or other tags, without any remaining amino acid residue is essential. The described procedure can easily be generalized and combined with various affinity tags at the C-terminus for chromatographic applications.
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Affiliation(s)
- Heba A H Abd Elhameed
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720, Szeged, Hungary
| | - Bálint Hajdu
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720, Szeged, Hungary
| | - Ria K Balogh
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720, Szeged, Hungary
| | - Enikő Hermann
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720, Szeged, Hungary
| | - Éva Hunyadi-Gulyás
- Laboratory of Proteomics Research, Institute of Biochemistry, Biological Research Centre of the Hungarian Academy of Sciences, Temesvári krt. 62, H-6726, Szeged, Hungary
| | - Béla Gyurcsik
- Department of Inorganic and Analytical Chemistry, University of Szeged, Dóm tér 7, H-6720, Szeged, Hungary.
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18
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Mahesh S, Tang KC, Raj M. Amide Bond Activation of Biological Molecules. Molecules 2018; 23:E2615. [PMID: 30322008 PMCID: PMC6222841 DOI: 10.3390/molecules23102615] [Citation(s) in RCA: 103] [Impact Index Per Article: 17.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2018] [Revised: 10/09/2018] [Accepted: 10/09/2018] [Indexed: 12/02/2022] Open
Abstract
Amide bonds are the most prevalent structures found in organic molecules and various biomolecules such as peptides, proteins, DNA, and RNA. The unique feature of amide bonds is their ability to form resonating structures, thus, they are highly stable and adopt particular three-dimensional structures, which, in turn, are responsible for their functions. The main focus of this review article is to report the methodologies for the activation of the unactivated amide bonds present in biomolecules, which includes the enzymatic approach, metal complexes, and non-metal based methods. This article also discusses some of the applications of amide bond activation approaches in the sequencing of proteins and the synthesis of peptide acids, esters, amides, and thioesters.
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Affiliation(s)
- Sriram Mahesh
- Department of Chemistry and Biochemistry, Auburn University, Auburn, AL 36849, USA.
| | - Kuei-Chien Tang
- Department of Chemistry and Biochemistry, Auburn University, Auburn, AL 36849, USA.
| | - Monika Raj
- Department of Chemistry and Biochemistry, Auburn University, Auburn, AL 36849, USA.
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19
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Paul TJ, Parac-Vogt TN, Quiñonero D, Prabhakar R. Investigating Polyoxometalate–Protein Interactions at Chemically Distinct Binding Sites. J Phys Chem B 2018; 122:7219-7232. [DOI: 10.1021/acs.jpcb.8b02931] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Thomas J. Paul
- Department of Chemistry, University of Miami, Coral Gables, Florida 33146, United States
| | | | - David Quiñonero
- Department of Chemistry, Universitat de les Illes Balears, Palma de Mallorca 07122, Spain
| | - Rajeev Prabhakar
- Department of Chemistry, University of Miami, Coral Gables, Florida 33146, United States
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20
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Kluska K, Adamczyk J, Krężel A. Metal binding properties, stability and reactivity of zinc fingers. Coord Chem Rev 2018. [DOI: 10.1016/j.ccr.2018.04.009] [Citation(s) in RCA: 109] [Impact Index Per Article: 18.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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21
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Hydrolysis of Methionine- and Histidine-Containing Peptides Promoted by Dinuclear Platinum(II) Complexes with Benzodiazines as Bridging Ligands: Influence of Ligand Structure on the Catalytic Ability of Platinum(II) Complexes. Bioinorg Chem Appl 2018; 2018:3294948. [PMID: 29853829 PMCID: PMC5967607 DOI: 10.1155/2018/3294948] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2018] [Accepted: 04/05/2018] [Indexed: 11/17/2022] Open
Abstract
Dinuclear platinum(II) complexes, [{Pt(en)Cl}2(μ-qx)]Cl2·2H2O (1), [{Pt(en)Cl}2(μ-qz)](ClO4)2 (2), and [{Pt(en)Cl}2(μ-phtz)]Cl2·4H2O (3), were synthesized and characterized by different spectroscopic techniques. The crystal structure of 1 was determined by single-crystal X-ray diffraction analysis, while the DFT M06-2X method was applied in order to optimize the structures of 1-3. The chlorido Pt(II) complexes 1-3 were converted into the corresponding aqua species 1a-3a, and their reactions with an equimolar amount of Ac-L-Met-Gly and Ac-L-His-Gly dipeptides were studied by 1H NMR spectroscopy in the pH range 2.0 < pH < 2.5 at 37°C. It was found that, in all investigated reactions with the Ac-L-Met-Gly dipeptide, the cleavage of the Met-Gly amide bond had occurred, but complexes 2a and 3a showed lower catalytic activity than 1a. However, in the reactions with Ac-L-His-Gly dipeptide, the hydrolysis of the amide bond involving the carboxylic group of histidine was observed only with complex 1a. The observed disparity in the catalytic activity of these complexes is thought to be due to different relative positioning of nitrogen atoms in the bridging qx, qz, and phtz ligands and consequent variation in the intramolecular separation of the two platinum(II) metal centers.
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22
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Ly HGT, Fu G, Kondinski A, Bueken B, De Vos D, Parac-Vogt TN. Superactivity of MOF-808 toward Peptide Bond Hydrolysis. J Am Chem Soc 2018; 140:6325-6335. [PMID: 29684281 DOI: 10.1021/jacs.8b01902] [Citation(s) in RCA: 79] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
MOF-808, a Zr(IV)-based metal-organic framework, has been proven to be a very effective heterogeneous catalyst for the hydrolysis of the peptide bond in a wide range of peptides and in hen egg white lysozyme protein. The kinetic experiments with a series of Gly-X dipeptides with varying nature of amino acid side chain have shown that MOF-808 exhibits selectivity depending on the size and chemical nature of the X side chain. Dipeptides with smaller or hydrophilic residues were hydrolyzed faster than those with bulky and hydrophobic residues that lack electron rich functionalities which could engage in favorable intermolecular interactions with the btc linkers. Detailed kinetic studies performed by 1H NMR spectroscopy revealed that the rate of glycylglycine (Gly-Gly) hydrolysis at pD 7.4 and 60 °C was 2.69 × 10-4 s-1 ( t1/2 = 0.72 h), which is more than 4 orders of magnitude faster compared to the uncatalyzed reaction. Importantly, MOF-808 can be recycled several times without significantly compromising the catalytic activity. A detailed quantum-chemical study combined with experimental data allowed to unravel the role of the {Zr6O8} core of MOF-808 in accelerating Gly-Gly hydrolysis. A mechanism for the hydrolysis of Gly-Gly by MOF-808 is proposed in which Gly-Gly binds to two Zr(IV) centers of the {Zr6O8} core via the oxygen atom of the amide group and the N-terminus. The activity of MOF-808 was also demonstrated toward the hydrolysis of hen egg white lysozyme, a protein consisting of 129 amino acids. Selective fragmentation of the protein was observed with 55% yield after 25 h under physiological pH.
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Affiliation(s)
- Hong Giang T Ly
- Laboratory of Bioinorganic Chemistry, Department of Chemistry , KU Leuven , Celestijnenlaan 200F , 3001 Leuven , Belgium
| | - Guangxia Fu
- Centre for Surface Chemistry and Catalysis , KU Leuven , Celestijnenlaan 200F , 3001 Leuven , Belgium
| | - Aleksandar Kondinski
- Laboratory of Bioinorganic Chemistry, Department of Chemistry , KU Leuven , Celestijnenlaan 200F , 3001 Leuven , Belgium
| | - Bart Bueken
- Centre for Surface Chemistry and Catalysis , KU Leuven , Celestijnenlaan 200F , 3001 Leuven , Belgium
| | - Dirk De Vos
- Centre for Surface Chemistry and Catalysis , KU Leuven , Celestijnenlaan 200F , 3001 Leuven , Belgium
| | - Tatjana N Parac-Vogt
- Laboratory of Bioinorganic Chemistry, Department of Chemistry , KU Leuven , Celestijnenlaan 200F , 3001 Leuven , Belgium
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23
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Dancs Á, Selmeczi K, May NV, Gajda T. On the copper(ii) binding of asymmetrically functionalized tripodal peptides: solution equilibrium, structure, and enzyme mimicking. NEW J CHEM 2018. [DOI: 10.1039/c7nj04716a] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The increasing histidyl functionalisation of tren results in the fundamental impact on the structure, stability and catecholase activity of its copper(ii) complexes.
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Affiliation(s)
- Ágnes Dancs
- Department of Inorganic and Analytical Chemistry
- University of Szeged
- H-6720 Szeged
- Hungary
- Université de Lorraine – CNRS
| | - Katalin Selmeczi
- Université de Lorraine – CNRS
- UMR 7053 L2CM
- 54506 Vandœuvre-lès-Nancy
- France
| | - Nóra V. May
- Institute of Organic Chemistry
- Research Centre for Natural Sciences HAS
- H-1117 Budapest
- Hungary
| | - Tamás Gajda
- Department of Inorganic and Analytical Chemistry
- University of Szeged
- H-6720 Szeged
- Hungary
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24
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Belczyk-Ciesielska A, Csipak B, Hajdu B, Sparavier A, Asaka MN, Nagata K, Gyurcsik B, Bal W. Nickel(ii)-promoted specific hydrolysis of zinc finger proteins. Metallomics 2018; 10:1089-1098. [DOI: 10.1039/c8mt00098k] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
The (S/T)XH sequence in Cys2His2zinc fingers can be hydrolytically cleaved by Ni(ii) ions. This reaction can be applied for purification, inhibition or activation of designed zinc finger fusion proteins.
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Affiliation(s)
| | - Brigitta Csipak
- Department of Inorganic and Analytical Chemistry
- University of Szeged
- Szeged H-6720
- Hungary
| | - Bálint Hajdu
- Department of Inorganic and Analytical Chemistry
- University of Szeged
- Szeged H-6720
- Hungary
| | | | - Masamitsu N. Asaka
- Nagata Special Laboratory
- Faculty of Medicine
- University of Tsukuba
- Tsukuba 305-8575
- Japan
| | - Kyosuke Nagata
- Nagata Special Laboratory
- Faculty of Medicine
- University of Tsukuba
- Tsukuba 305-8575
- Japan
| | - Béla Gyurcsik
- Department of Inorganic and Analytical Chemistry
- University of Szeged
- Szeged H-6720
- Hungary
| | - Wojciech Bal
- Institute of Biochemistry and Biophysics
- Polish Academy of Sciences
- Warsaw
- Poland
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25
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Dancs Á, May NV, Selmeczi K, Darula Z, Szorcsik A, Matyuska F, Páli T, Gajda T. Tuning the coordination properties of multi-histidine peptides by using a tripodal scaffold: solution chemical study and catechol oxidase mimicking. NEW J CHEM 2017. [DOI: 10.1039/c6nj03126a] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Histidine-rich tripodal peptides form unique oligonuclear complexes with copper(ii), which exhibit efficient catecholase-like activity.
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Affiliation(s)
- Ágnes Dancs
- Department of Inorganic and Analytical Chemistry
- University of Szeged
- H-6720 Szeged
- Hungary
- Université de Lorraine – CNRS
| | - Nóra V. May
- Research Centre for Natural Sciences HAS
- H-1117 Budapest
- Hungary
| | - Katalin Selmeczi
- Université de Lorraine – CNRS
- UMR 7565 SRSMC
- 54506 Vandœuvre-lès-Nancy
- France
| | - Zsuzsanna Darula
- Institute of Biochemistry
- Biological Research Centre
- Hungarian Academy of Sciences
- H-6724 Szeged
- Hungary
| | - Attila Szorcsik
- MTA-SZTE Bioinorganic Chemistry Research Group
- H-6720 Szeged
- Hungary
| | - Ferenc Matyuska
- Department of Inorganic and Analytical Chemistry
- University of Szeged
- H-6720 Szeged
- Hungary
| | - Tibor Páli
- Institute of Biophysics
- Biological Research Centre
- Hungarian Academy of Sciences
- H-6724 Szeged
- Hungary
| | - Tamás Gajda
- Department of Inorganic and Analytical Chemistry
- University of Szeged
- H-6720 Szeged
- Hungary
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26
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Metal assisted peptide bond hydrolysis: Chemistry, biotechnology and toxicological implications. Coord Chem Rev 2016. [DOI: 10.1016/j.ccr.2016.02.009] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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27
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Gao P, Wu Y, Wu L. Co-assembly of polyoxometalates and peptides towards biological applications. SOFT MATTER 2016; 12:8464-8479. [PMID: 27714298 DOI: 10.1039/c6sm01433j] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
The synergistic self-assembly of biomolecules with polyoxometalates (POMs) has recently been considered as an effective approach to construct nano-biomaterials with diverse structures and morphologies towards applications in drug delivery, controlled release, tissue engineering scaffolds, and biomineralization, due to the unique features of the clusters in addition to many well-known inorganic nanoparticles. This review presents an overview of recent work focusing on the noncovalent co-assembly of peptides and POMs as well as their biological applications. In the co-assemblies triggered by the interaction between the components significant advantages are observed that POMs or peptides alone do not possess; examples include chiral recognition of hybrid metal oxides, the quick hydrolysis of peptides, and enhanced inhibition of Aβ aggregation. Finally, we outline a brief perspective on possible unresolved issues and future opportunities in this field.
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Affiliation(s)
- Pengfan Gao
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, No. 2699 Qianjin Street, Changchun 130012, China.
| | - Yuqing Wu
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, No. 2699 Qianjin Street, Changchun 130012, China.
| | - Lixin Wu
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, No. 2699 Qianjin Street, Changchun 130012, China.
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28
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GL-9 peptide regulates gene expression of CD44 cancer marker and pro-inflammatory cytokine TNF-α in human lung epithelial adenocarcinoma cell line (A549). Mol Cell Biochem 2016; 423:141-149. [DOI: 10.1007/s11010-016-2832-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2016] [Accepted: 09/23/2016] [Indexed: 01/30/2023]
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29
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Shabestarian H, Asoodeh A, Homayouni-Tabrizi M, Hossein-Nejad-Ariani H. Antioxidant and Angiotensin I Converting Enzyme (ACE) Inhibitory Properties of GL-9 Peptide. J FOOD PROCESS PRES 2016. [DOI: 10.1111/jfpp.12838] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Affiliation(s)
- Hoda Shabestarian
- Department of Basic Science, Faculty of Veterinary Medicine; Ferdowsi University of Mashhad; Mashhad Iran
| | - Ahmad Asoodeh
- Department of Chemistry, Faculty of Science; Ferdowsi University of Mashhad; Mashhad Iran
| | - Masoud Homayouni-Tabrizi
- Department of Biochemistry and Biophysics, Mashhad Branch, Islamic Azad University; Mashhad Iran
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30
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Ly HGT, Absillis G, Parac-Vogt TN. Influence of the amino acid side chain on peptide bond hydrolysis catalyzed by a dimeric Zr(iv)-substituted Keggin type polyoxometalate. NEW J CHEM 2016. [DOI: 10.1039/c5nj00561b] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Structurally different dipeptides were hydrolyzed by [{α-PW11O39Zr-(μ-OH)(H2O)}2]8−. The rate constants were dependent on bulkiness and chemical nature of the dipeptide.
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31
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Sap A, Absillis G, Parac-Vogt TN. Selective hydrolysis of oxidized insulin chain B by a Zr(IV)-substituted Wells-Dawson polyoxometalate. Dalton Trans 2015; 44:1539-48. [PMID: 25216342 DOI: 10.1039/c4dt01477d] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
We report for the first time on the selective hydrolysis of a polypeptide system by a metal-substituted polyoxometalate (POM). Oxidized insulin chain B, a 30 amino acid polypeptide, was selectively cleaved by the Zr(IV)-substituted Wells-Dawson POM, K15H[Zr(α2-P2W17O61)2]·25H2O, under physiological pH and temperature conditions in aqueous solution. HPLC-ESI-MS, LC-MS/MS, MALDI-TOF and MALDI-TOF MS/MS data indicate hydrolysis at the Phe1-Val2, Gln4-His5, Leu6-Cys(SO3H)7, and Gly8-Ser9 peptide bonds. The rate of oxidized insulin chain B hydrolysis (0.45 h(-1) at pH 7.0 and 60 °C) was calculated by fitting the integration values of its HPLC-UV signal to a first-order exponential decay function. (1)H NMR measurements show significant line broadening and shifting of the polypeptide resonances upon addition of the Zr(IV)-POM, indicating that interaction between the Zr(IV)-POM and the polypeptide takes place in solution. Circular dichroism (CD) measurements clearly prove that the flexible unfolded nature of the polypeptide was retained in the presence of the Zr(IV)-POM. The thermal stability of the Zr(IV)-POM in the presence of the polypeptide chain during the hydrolytic reaction was confirmed by (31)P NMR spectroscopy. Despite the highly negative charge of the Zr(IV)-POM, the mechanism of interaction appears to be dominated by a strong metal-directed binding between the positively charged Zr(IV) center and negatively charged amino acid side chains.
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Affiliation(s)
- Annelies Sap
- KU Leuven, Department of Chemistry, Celestijnenlaan 200F, B-3001 Heverlee, Belgium.
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32
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Single step purification of recombinant proteins using the metal ion-inducible autocleavage (MIIA) domain as linker for tag removal. J Biotechnol 2015; 208:22-7. [PMID: 26026704 DOI: 10.1016/j.jbiotec.2015.05.016] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2015] [Revised: 05/21/2015] [Accepted: 05/24/2015] [Indexed: 11/23/2022]
Abstract
For fast and easy purification, proteins are typically fused with an affinity tag, which often needs to be removed after purification. Here, we present a method for the removal of the affinity tag from the target protein in a single step protocol. The protein VIC_001052 of the coral pathogen Vibrio coralliilyticus ATCC BAA-450 contains a metal ion-inducible autocatalytic cleavage (MIIA) domain. Its coding sequence was inserted into an expression vector for the production of recombinant fusion proteins. Following, the target proteins MalE and mCherry were produced as MIIA-Strep fusion proteins in Escherichia coli. The target proteins could be separated from the MIIA-Strep part simply by the addition of calcium or manganese(II) ions within minutes. The cleavage is not affected in the pH range from 5.0 to 9.0 or at low temperatures (6°C). Autocleavage was also observed with immobilized protein on an affinity column. The protein yield was similar to that achieved with a conventional purification protocol.
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33
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Tsuda Y, Shigenaga A, Tsuji K, Denda M, Sato K, Kitakaze K, Nakamura T, Inokuma T, Itoh K, Otaka A. Development of a Chemical Methodology for the Preparation of Peptide Thioesters Applicable to Naturally Occurring Peptides Using a Sequential Quadruple Acyl Transfer System. ChemistryOpen 2015; 4:448-52. [PMID: 26478838 PMCID: PMC4603404 DOI: 10.1002/open.201500086] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2015] [Indexed: 02/04/2023] Open
Abstract
Peptide thioesters are very useful in protein chemistry, and chemistry- and biochemistry-based protocols are used for the preparation of thioesters. Among such protocols, only a few biochemistry-based approaches have been use for naturally occurring peptide sequences. The development of chemistry-based protocols applicable to natural sequences remains a challenge, and the development of such methods would be a major contribution to protein science. Here, we describe the preparation of peptide thioesters using innovative methodology that features nickel(II)-mediated alcoholysis of a naturally occurring peptide sequence, followed by O−N and N−S acyl transfers. This protocol involves sequential quadruple acyl transfer, termed SQAT. Notably, the SQAT system consists of sequential chemical reactions that allow naturally occurring peptide sequences to be converted to thioesters without requiring an artificial chemical unit.
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Affiliation(s)
- Yusuke Tsuda
- Institute of Health Bioscience, Graduate School of PharmaceuticalSciences, Tokushima University Shomachi, Tokushima, 770-8505, Japan
| | - Akira Shigenaga
- Institute of Health Bioscience, Graduate School of PharmaceuticalSciences, Tokushima University Shomachi, Tokushima, 770-8505, Japan
| | - Kohei Tsuji
- Institute of Health Bioscience, Graduate School of PharmaceuticalSciences, Tokushima University Shomachi, Tokushima, 770-8505, Japan
| | - Masaya Denda
- Institute of Health Bioscience, Graduate School of PharmaceuticalSciences, Tokushima University Shomachi, Tokushima, 770-8505, Japan
| | - Kohei Sato
- Institute of Health Bioscience, Graduate School of PharmaceuticalSciences, Tokushima University Shomachi, Tokushima, 770-8505, Japan
| | - Keisuke Kitakaze
- Institute of Health Bioscience, Graduate School of PharmaceuticalSciences, Tokushima University Shomachi, Tokushima, 770-8505, Japan
| | - Takahiro Nakamura
- Institute of Health Bioscience, Graduate School of PharmaceuticalSciences, Tokushima University Shomachi, Tokushima, 770-8505, Japan
| | - Tsubasa Inokuma
- Institute of Health Bioscience, Graduate School of PharmaceuticalSciences, Tokushima University Shomachi, Tokushima, 770-8505, Japan
| | - Kohji Itoh
- Institute of Health Bioscience, Graduate School of PharmaceuticalSciences, Tokushima University Shomachi, Tokushima, 770-8505, Japan
| | - Akira Otaka
- Institute of Health Bioscience, Graduate School of PharmaceuticalSciences, Tokushima University Shomachi, Tokushima, 770-8505, Japan
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Bossak K, Goch W, Piątek K, Frączyk T, Poznański J, Bonna A, Keil C, Hartwig A, Bal W. Unusual Zn(II) Affinities of Zinc Fingers of Poly(ADP-ribose) Polymerase 1 (PARP-1) Nuclear Protein. Chem Res Toxicol 2015; 28:191-201. [DOI: 10.1021/tx500320f] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Karolina Bossak
- Institute of Biochemistry
and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106 Warsaw, Poland
| | - Wojciech Goch
- Institute of Biochemistry
and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106 Warsaw, Poland
| | - Katarzyna Piątek
- Institute of Biochemistry
and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106 Warsaw, Poland
| | - Tomasz Frączyk
- Institute of Biochemistry
and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106 Warsaw, Poland
| | - Jarosław Poznański
- Institute of Biochemistry
and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106 Warsaw, Poland
| | - Arkadiusz Bonna
- Institute of Biochemistry
and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106 Warsaw, Poland
| | - Claudia Keil
- Institute of Applied Biosciences, Department of Food
Chemistry and Toxicology, Karlsruhe Institute of Technology, 76131 Karlsruhe, Germany
| | - Andrea Hartwig
- Institute of Applied Biosciences, Department of Food
Chemistry and Toxicology, Karlsruhe Institute of Technology, 76131 Karlsruhe, Germany
| | - Wojciech Bal
- Institute of Biochemistry
and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106 Warsaw, Poland
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Wezynfeld NE, Bonna A, Bal W, Frączyk T. Ni(ii) ions cleave and inactivate human alpha-1 antitrypsin hydrolytically, implicating nickel exposure as a contributing factor in pathologies related to antitrypsin deficiency. Metallomics 2015; 7:596-604. [DOI: 10.1039/c4mt00316k] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Ni(ii) ions cleave AAT hydrolytically, inactivating the protein.
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Affiliation(s)
- Nina Ewa Wezynfeld
- Institute of Biochemistry and Biophysics
- Polish Academy of Sciences
- 02-106 Warsaw, Poland
| | - Arkadiusz Bonna
- Institute of Biochemistry and Biophysics
- Polish Academy of Sciences
- 02-106 Warsaw, Poland
| | - Wojciech Bal
- Institute of Biochemistry and Biophysics
- Polish Academy of Sciences
- 02-106 Warsaw, Poland
| | - Tomasz Frączyk
- Institute of Biochemistry and Biophysics
- Polish Academy of Sciences
- 02-106 Warsaw, Poland
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36
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Wezynfeld NE, Bossak K, Goch W, Bonna A, Bal W, Frączyk T. Human annexins A1, A2, and A8 as potential molecular targets for Ni(II) ions. Chem Res Toxicol 2014; 27:1996-2009. [PMID: 25330107 DOI: 10.1021/tx500337w] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Nickel is harmful for humans, but molecular mechanisms of its toxicity are far from being fully elucidated. One of such mechanisms may be associated with the Ni(II)-dependent peptide bond hydrolysis, which occurs before Ser/Thr in Ser/Thr-Xaa-His sequences. Human annexins A1, A2, and A8, proteins modulating the immune system, contain several such sequences. To test if these proteins are potential molecular targets for nickel toxicity we characterized the binding of Ni(II) ions and hydrolysis of peptides Ac-KALTGHLEE-am (A1-1), Ac-TKYSKHDMN-am (A1-2), and Ac-GVGTRHKAL-am (A1-3), from annexin A1, Ac-KMSTVHEIL-am (A2-1) and Ac-SALSGHLET-am (A2-2), from annexin A2, and Ac-VKSSSHFNP-am (A8-1), from annexin A8, using UV-vis and circular dichroism (CD) spectroscopies, potentiometry, isothermal titration calorimetry, high-performance liquid chromatography (HPLC), and electrospray ionization mass spectrometry (ESI-MS). We found that at physiological conditions (pH 7.4 and 37 °C) peptides A1-2, A1-3, A8-1, and to some extent A2-2 bind Ni(II) ions sufficiently strongly in 4N complexes and are hydrolyzed at sufficiently high rates to justify the notion that these annexins can undergo nickel hydrolysis in vivo. These results are discussed in the context of specific biochemical interactions of respective proteins. Our results also expand the knowledge about Ni(II) binding to histidine peptides by determination of thermodynamic parameters of this process and spectroscopic characterization of 3N complexes. Altogether, our results indicate that human annexins A1, A2, and A8 are potential molecular targets for nickel toxicity and help design appropriate cellular studies.
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Affiliation(s)
- Nina E Wezynfeld
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences , Pawińskiego 5a, 02-106 Warsaw, Poland
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Atomic resolution structure of a protein prepared by non-enzymatic His-tag removal. Crystallographic and NMR study of GmSPI-2 inhibitor. PLoS One 2014; 9:e106936. [PMID: 25233114 PMCID: PMC4169406 DOI: 10.1371/journal.pone.0106936] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2014] [Accepted: 08/09/2014] [Indexed: 12/03/2022] Open
Abstract
Purification of suitable quantity of homogenous protein is very often the bottleneck in protein structural studies. Overexpression of a desired gene and attachment of enzymatically cleavable affinity tags to the protein of interest made a breakthrough in this field. Here we describe the structure of Galleria mellonella silk proteinase inhibitor 2 (GmSPI-2) determined both by X-ray diffraction and NMR spectroscopy methods. GmSPI-2 was purified using a new method consisting in non-enzymatic His-tag removal based on a highly specific peptide bond cleavage reaction assisted by Ni(II) ions. The X-ray crystal structure of GmSPI-2 was refined against diffraction data extending to 0.98 Å resolution measured at 100 K using synchrotron radiation. Anisotropic refinement with the removal of stereochemical restraints for the well-ordered parts of the structure converged with R factor of 10.57% and Rfree of 12.91%. The 3D structure of GmSPI-2 protein in solution was solved on the basis of 503 distance constraints, 10 hydrogen bonds and 26 torsion angle restraints. It exhibits good geometry and side-chain packing parameters. The models of the protein structure obtained by X-ray diffraction and NMR spectroscopy are very similar to each other and reveal the same β2αβ fold characteristic for Kazal-family serine proteinase inhibitors.
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Podobas EI, Bonna A, Polkowska-Nowakowska A, Bal W. Dual catalytic role of the metal ion in nickel-assisted peptide bond hydrolysis. J Inorg Biochem 2014; 136:107-14. [DOI: 10.1016/j.jinorgbio.2014.03.008] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2013] [Revised: 03/08/2014] [Accepted: 03/10/2014] [Indexed: 10/25/2022]
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Belczyk-Ciesielska A, Zawisza IA, Mital M, Bonna A, Bal W. Sequence-specific Cu(II)-dependent peptide bond hydrolysis: similarities and differences with the Ni(II)-dependent reaction. Inorg Chem 2014; 53:4639-46. [PMID: 24735221 DOI: 10.1021/ic5003176] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Potentiometry and UV-vis and circular dichroism spectroscopies were applied to characterize Cu(II) coordination to the Ac-GASRHWKFL-NH2 peptide. Using HPLC and ESI-MS, we demonstrated that Cu(II) ions cause selective hydrolysis of the Ala-Ser peptide bond in this peptide and characterized the pH and temperature dependence of the reaction. We found that Cu(II)-dependent hydrolysis occurs solely in 4N complexes, in which the equatorial coordination positions of the Cu(II) ion are saturated by peptide donor atoms, namely, the pyridine-like nitrogen of the His imidazole ring and three preceding peptide bond nitrogens. Analysis of the reaction products led to the conclusion that Cu(II)-dependent hydrolysis proceeds according to the mechanism demonstrated previously for Ni(II) ions (Kopera, E.; Krężel, A.; Protas, A. M.; Belczyk, A.; Bonna, A.; Wysłouch-Cieszyńska, A.; Poznański, J.; Bal, W. Inorg. Chem. 2010, 49, 6636-6645). However, the pseudo-first-order reaction rate found for Cu(II) is, on average, 100 times lower than that for Ni(II) ions. The greater ability of Cu(II) ions to form 4N complexes at lower pH partially compensates for this difference in rates, resulting in similar hydrolytic activities for the two ions around pH 7.
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40
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Malandrinos G, Hadjiliadis N. Cu(II)–histones interaction related to toxicity-carcinogenesis. Coord Chem Rev 2014. [DOI: 10.1016/j.ccr.2013.12.013] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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41
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Protas AM, Ariani HHN, Bonna A, Polkowska-Nowakowska A, Poznański J, Bal W. Sequence-specific Ni(II)-dependent peptide bond hydrolysis for protein engineering: Active sequence optimization. J Inorg Biochem 2013; 127:99-106. [DOI: 10.1016/j.jinorgbio.2013.07.037] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2013] [Revised: 07/27/2013] [Accepted: 07/27/2013] [Indexed: 10/26/2022]
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42
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Peana M, Medici S, Nurchi VM, Crisponi G, Zoroddu MA. Nickel binding sites in histone proteins: Spectroscopic and structural characterization. Coord Chem Rev 2013. [DOI: 10.1016/j.ccr.2013.02.022] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
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43
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Schirrmeister J, Zocher S, Flor L, Göttfert M, Zehner S. The domain of unknown function DUF1521 exhibits metal ion-inducible autocleavage activity - a novel example from a putative effector protein ofVibrio coralliilyticusATCC BAA-450. FEMS Microbiol Lett 2013; 343:177-82. [DOI: 10.1111/1574-6968.12145] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2013] [Revised: 03/21/2013] [Accepted: 03/28/2013] [Indexed: 01/13/2023] Open
Affiliation(s)
| | - Sara Zocher
- Technische Universität Dresden; Institute of Genetics; Dresden; Germany
| | - Liane Flor
- Technische Universität Dresden; Institute of Genetics; Dresden; Germany
| | - Michael Göttfert
- Technische Universität Dresden; Institute of Genetics; Dresden; Germany
| | - Susanne Zehner
- Technische Universität Dresden; Institute of Genetics; Dresden; Germany
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Ariani HH, Polkowska-Nowakowska A, Bal W. Effect of d-Amino Acid Substitutions on Ni(II)-Assisted Peptide Bond Hydrolysis. Inorg Chem 2013; 52:2422-31. [DOI: 10.1021/ic3022672] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Hanieh H. Ariani
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawinskiego 5a, 02-106
Warsaw, Poland
| | | | - Wojciech Bal
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawinskiego 5a, 02-106
Warsaw, Poland
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45
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Stroobants K, Moelants E, Ly HGT, Proost P, Bartik K, Parac-Vogt TN. Polyoxometalates as a Novel Class of Artificial Proteases: Selective Hydrolysis of Lysozyme under Physiological pH and Temperature Promoted by a Cerium(IV) Keggin-Type Polyoxometalate. Chemistry 2013; 19:2848-58. [DOI: 10.1002/chem.201203020] [Citation(s) in RCA: 123] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2012] [Revised: 11/15/2012] [Indexed: 11/10/2022]
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46
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Vanhaecht S, Absillis G, Parac-Vogt TN. Amino acid side chain induced selectivity in the hydrolysis of peptides catalyzed by a Zr(iv)-substituted Wells–Dawson type polyoxometalate. Dalton Trans 2013; 42:15437-46. [DOI: 10.1039/c3dt51893k] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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47
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Ly HGT, Absillis G, Parac-Vogt TN. Amide bond hydrolysis in peptides and cyclic peptides catalyzed by a dimeric Zr(iv)-substituted Keggin type polyoxometalate. Dalton Trans 2013; 42:10929-38. [DOI: 10.1039/c3dt50705j] [Citation(s) in RCA: 60] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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48
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Sóvágó I, Kállay C, Várnagy K. Peptides as complexing agents: Factors influencing the structure and thermodynamic stability of peptide complexes. Coord Chem Rev 2012. [DOI: 10.1016/j.ccr.2012.02.026] [Citation(s) in RCA: 126] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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49
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Absillis G, Parac-Vogt TN. Peptide bond hydrolysis catalyzed by the Wells-Dawson Zr(α2-P2W17O61)2 polyoxometalate. Inorg Chem 2012; 51:9902-10. [PMID: 22928475 DOI: 10.1021/ic301364n] [Citation(s) in RCA: 99] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
In this paper we report the first example of peptide hydrolysis catalyzed by a polyoxometalate complex. A series of metal-substituted Wells-Dawson polyoxometalates were synthesized, and their hydrolytic activity toward the peptide bond in glycylglycine (GG) was examined. Among these, the Zr(IV)- and Hf(IV)-substituted ones were the most reactive. Detailed kinetic studies were performed with the Zr(IV)-substituted Wells-Dawson type polyoxometalate K(15)H[Zr(α(2)-P(2)W(17)O(61))(2)]·25H(2)O which was shown to act as a catalyst for the hydrolysis of the peptide bond in GG. The speciation of K(15)H[Zr(α(2)-P(2)W(17)O(61))(2)]·25H(2)O which is highly dependent on the pD, concentration, and temperature of the solution, was fully determined with the help of (31)P NMR spectroscopy and its influence on the GG hydrolysis rate was examined. The highest reaction rate (k(obs) = 9.2 (±0.2) × 10(-5) min(-1)) was observed at pD 5.0 and 60 °C. A 10-fold excess of GG was hydrolyzed in the presence of K(15)H[Zr(α(2)-P(2)W(17)O(61))(2)]·25H(2)O proving the principles of catalysis. (13)C NMR data suggested the coordination of GG to the Zr(IV) center in K(15)H[Zr(α(2)-P(2)W(17)O(61))(2)]·25H(2)O via its N-terminal amine group and amide carbonyl oxygen. These findings were confirmed by the inactivity of K(15)H[Zr(α(2)-P(2)W(17)O(61))(2)]·25H(2)O toward the N-blocked analogue acetamidoglycylglycinate and the inhibitory effect of oxalic, malic, and citric acid. Triglycine, tetraglycine, and pentaglycine were also fully hydrolyzed in the presence of K(15)H[Zr(α(2)-P(2)W(17)O(61))(2)]·25H(2)O yielding glycine as the final product of hydrolysis. K(15)H[Zr(α(2)-P(2)W(17)O(61))(2)]·25H(2)O also exhibited hydrolytic activity toward a series of other dipeptides.
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Affiliation(s)
- Gregory Absillis
- Department of Chemistry, KU Leuven, Celestijnenlaan 200F, B-3001 Leuven, Belgium
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50
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Ho PH, Mihaylov T, Pierloot K, Parac-Vogt TN. Hydrolytic Activity of Vanadate toward Serine-Containing Peptides Studied by Kinetic Experiments and DFT Theory. Inorg Chem 2012; 51:8848-59. [DOI: 10.1021/ic300761g] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Phuong Hien Ho
- Department
of Chemistry, KU Leuven, Celestijnenlaan
200F, B-3001, Leuven, Belgium
| | - Tzvetan Mihaylov
- Department
of Chemistry, KU Leuven, Celestijnenlaan
200F, B-3001, Leuven, Belgium
| | - Kristine Pierloot
- Department
of Chemistry, KU Leuven, Celestijnenlaan
200F, B-3001, Leuven, Belgium
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