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      Arginine substitution by alanine at the P1 position increases the selectivity of CmPI-II, a non-classical Kazal inhibitor

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          Abstract

          CmPI-II is a Kazal-type tight-binding inhibitor isolated from the Caribbean snail Cenchritis muricatus. This inhibitor has an unusual specificity in the Kazal family, as it can inhibit subtilisin A (SUBTA), elastases and trypsin. An alanine in CmPI-II P1 site could avoid trypsin inhibition while improving/maintaining SUBTA and elastases inhibition. Thus, an alanine mutant of this position (rCmPI-II R12A) was obtained by site-directed mutagenesis. The gene cmpiR12A was expressed in P. pastoris KM71H yeast. The recombinant protein (rCmPI-II R12A) was purified by the combination of two ionic exchange chromatography (1:cationic, 2 anionic) followed by and size exclusion chromatography. The N-terminal sequence obtained as well as the experimental molecular weight allowed verifying the identity of the recombinant protein, while the correct folding was confirmed by CD experiments. rCmPI-II R12A shows a slightly increase in potency against SUBTA and elastases. The alanine substitution at P1 site on CmPI-II abolishes the trypsin inhibition, confirming the relevance of an arginine residue at P1 site in CmPI-II for trypsin inhibition and leading to a molecule with more potentialities in biomedicine.

          Highlights

          • The alanine substitution at P1 site on CmPI-II abolishes the trypsin inhibition.

          • Besides P1 site, other residues contribute to CmPI-II:SUBTA/elastases interaction.

          • R12 change at P1 site on CmPI-II improves the selectivity of the inhibitor.

          • CmPI-II scaffold is a source of selective inhibitors with biomedical applications.

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          Most cited references40

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          Protein Identification and Analysis Tools on the ExPASy Server

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            The MEROPS database of proteolytic enzymes, their substrates and inhibitors in 2017 and a comparison with peptidases in the PANTHER database

            Abstract The MEROPS database (http://www.ebi.ac.uk/merops/) is an integrated source of information about peptidases, their substrates and inhibitors. The hierarchical classification is: protein-species, family, clan, with an identifier at each level. The MEROPS website moved to the EMBL-EBI in 2017, requiring refactoring of the code-base and services provided. The interface to sequence searching has changed and the MEROPS protein sequence libraries can be searched at the EMBL-EBI with HMMER, FastA and BLASTP. Cross-references have been established between MEROPS and the PANTHER database at both the family and protein-species level, which will help to improve curation and coverage between the resources. Because of the increasing size of the MEROPS sequence collection, in future only sequences of characterized proteins, and from completely sequenced genomes of organisms of evolutionary, medical or commercial significance will be added. As an example, peptidase homologues in four proteomes from the Asgard superphylum of Archaea have been identified and compared to other archaean, bacterial and eukaryote proteomes. This has given insights into the origins and evolution of peptidase families, including an expansion in the number of proteasome components in Asgard archaeotes and as organisms increase in complexity. Novel structures for proteasome complexes in archaea are postulated.
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              DICHROWEB, an online server for protein secondary structure analyses from circular dichroism spectroscopic data.

              The DICHROWEB web server enables on-line analyses of circular dichroism (CD) spectroscopic data, providing calculated secondary structure content and graphical analyses comparing calculated structures and experimental data. The server is located at http://www.cryst.bbk.ac.uk/cdweb and may be accessed via a password-limited user ID, available upon completion of a registration form. The server facilitates analyses using five popular algorithms and (currently) seven different reference databases by accepting data in a user-friendly manner in a wide range of formats, including those output by both commercial CD instruments and synchrotron radiation-based circular dichroism beamlines, as well as those produced by spectral processing software packages. It produces as output calculated secondary structures, a goodness-of-fit parameter for the analyses, and tabular and graphical displays of experimental, calculated and difference spectra. The web pages associated with the server provide information on CD spectroscopic methods and terms, literature references and aids for interpreting the analysis results.
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                Author and article information

                Contributors
                Journal
                Biochem Biophys Rep
                Biochem Biophys Rep
                Biochemistry and Biophysics Reports
                Elsevier
                2405-5808
                11 May 2021
                July 2021
                11 May 2021
                : 26
                : 101008
                Affiliations
                [1]Centro de Estudio de Proteínas, Universidad de La Habana, Calle 25 # 455, Plaza de La Revolución, CP 10400, La Habana, Cuba
                Author notes
                []Corresponding author. Centro de Estudio de Proteínas, Universidad de la Habana, Calle 25 # 455, Plaza de la Revolución, CP 10400, La Habana, Cuba. maday@ 123456fbio.uh.cu maday@ 123456fbio.uh.cu
                [∗∗ ]Corresponding author. EPOVAC, Centro de Inmunología Molecular, 15 esquina 216 S/N Siboney, La Habana, ZIP 16040, Cuba.; yamile@ 123456cim.sld.cu yamile@ 123456cim.sld.cu
                [1]

                These authors contributed equally to this work.

                [2]

                Current position : EPOVAC, Center of Molecular Immunology, 15 S/N Siboney, La Habana, Cuba, ZIP 16040.

                Article
                S2405-5808(21)00102-3 101008
                10.1016/j.bbrep.2021.101008
                8131977
                1b0d4ce1-acc2-4f0f-add4-97d8e0ba5b8d
                © 2021 The Author(s)

                This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

                History
                : 28 January 2021
                : 23 April 2021
                : 23 April 2021
                Categories
                Research Article

                protease,inhibitor,kazal-family,site-directed mutagenesis,subtilisin,trypsin,elastase

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