Comparison of Protease and Aminopeptidase Activities in Meconium: a Pilot Study
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Table of Contents
Table of contents SUMMARY IX ZUSAMMENFASSUNG XI 1. INTRODUCTION 1 1.1 The immune system 1 1.1.1 Function 1 1.1.2 Overview 1 1.1.3 Function of MHC molecules 1 1.1.4 The Major Histocompatibility Complex (MHC) Genes 2 1.1.5 Structure of MHC molecules 2 1.2 Antigen presentation 5 1.2.1 Outline of the conventional MHC class I pathway 5 1.3 The components of the peptide loading complex 7 1.3.1 Transporter associated with antigen presentation (TAP) 7 1.3.2 Calreticulin and calnexin 9 1.3.4 ERp 57/ER60 10 1.3.5 Tapasin (Tpn) 11 1.4 (a) The proteasomes 12 1.4 (b) Cytosolic peptidase 15 1.5 Endoplasmic Reticulum Associated Peptidase/s 16 1.6 Protein sorting 17 1.6.2 Vesicular transport in the Golgi apparatus 20 1.6.3 Endocytic pathway 20 1.6.4 Endocytic proteases 24 1.6.4.1 Biosynthesis and transport of cathepsins 25 1.6.4.2 Activation of cathepsins 26 1.6.4.3 Inhibitors of endosomal proteases. 26 1.7 Antigen processing by alternative pathways 27 1.8 Aim of the thesis 30 i 2. MATERIALS AND METHODS 31 2.1 Materials 31 2.1.1 Bacterial strains 31 2.1.2 Plasmids 31 2.1.2.1 Construction of plasmids 31 2.1.3 Primer list 32 2.1.4 PCR conditions 33 2.1.5 Antibiotics 34 2.1.6 Chemicals 34 2.1.7 Media for bacterial cells 34 2.1.8 Protein Chemicals 35 2.1.9 Animal cell culture media 37 2.1.11 Antibodies 39 2.1.11 siRNA oligonucleotides. -
Enzymatic Encoding Methods for Efficient Synthesis Of
(19) TZZ__T (11) EP 1 957 644 B1 (12) EUROPEAN PATENT SPECIFICATION (45) Date of publication and mention (51) Int Cl.: of the grant of the patent: C12N 15/10 (2006.01) C12Q 1/68 (2006.01) 01.12.2010 Bulletin 2010/48 C40B 40/06 (2006.01) C40B 50/06 (2006.01) (21) Application number: 06818144.5 (86) International application number: PCT/DK2006/000685 (22) Date of filing: 01.12.2006 (87) International publication number: WO 2007/062664 (07.06.2007 Gazette 2007/23) (54) ENZYMATIC ENCODING METHODS FOR EFFICIENT SYNTHESIS OF LARGE LIBRARIES ENZYMVERMITTELNDE KODIERUNGSMETHODEN FÜR EINE EFFIZIENTE SYNTHESE VON GROSSEN BIBLIOTHEKEN PROCEDES DE CODAGE ENZYMATIQUE DESTINES A LA SYNTHESE EFFICACE DE BIBLIOTHEQUES IMPORTANTES (84) Designated Contracting States: • GOLDBECH, Anne AT BE BG CH CY CZ DE DK EE ES FI FR GB GR DK-2200 Copenhagen N (DK) HU IE IS IT LI LT LU LV MC NL PL PT RO SE SI • DE LEON, Daen SK TR DK-2300 Copenhagen S (DK) Designated Extension States: • KALDOR, Ditte Kievsmose AL BA HR MK RS DK-2880 Bagsvaerd (DK) • SLØK, Frank Abilgaard (30) Priority: 01.12.2005 DK 200501704 DK-3450 Allerød (DK) 02.12.2005 US 741490 P • HUSEMOEN, Birgitte Nystrup DK-2500 Valby (DK) (43) Date of publication of application: • DOLBERG, Johannes 20.08.2008 Bulletin 2008/34 DK-1674 Copenhagen V (DK) • JENSEN, Kim Birkebæk (73) Proprietor: Nuevolution A/S DK-2610 Rødovre (DK) 2100 Copenhagen 0 (DK) • PETERSEN, Lene DK-2100 Copenhagen Ø (DK) (72) Inventors: • NØRREGAARD-MADSEN, Mads • FRANCH, Thomas DK-3460 Birkerød (DK) DK-3070 Snekkersten (DK) • GODSKESEN, -
ACE2 Interaction Networks in COVID-19: a Physiological Framework for Prediction of Outcome in Patients with Cardiovascular Risk Factors
Journal of Clinical Medicine Article ACE2 Interaction Networks in COVID-19: A Physiological Framework for Prediction of Outcome in Patients with Cardiovascular Risk Factors Zofia Wicik 1,2 , Ceren Eyileten 2, Daniel Jakubik 2,Sérgio N. Simões 3, David C. Martins Jr. 1, Rodrigo Pavão 1, Jolanta M. Siller-Matula 2,4,* and Marek Postula 2 1 Centro de Matemática, Computação e Cognição, Universidade Federal do ABC, Santo Andre 09606-045, Brazil; zofi[email protected] (Z.W.); [email protected] (D.C.M.J.); [email protected] (R.P.) 2 Department of Experimental and Clinical Pharmacology, Medical University of Warsaw, Center for Preclinical Research and Technology CEPT, 02-091 Warsaw, Poland; [email protected] (C.E.); [email protected] (D.J.); [email protected] (M.P.) 3 Federal Institute of Education, Science and Technology of Espírito Santo, Serra, Espírito Santo 29056-264, Brazil; [email protected] 4 Department of Internal Medicine II, Division of Cardiology, Medical University of Vienna, 1090 Vienna, Austria * Correspondence: [email protected]; Tel.: +43-1-40400-46140; Fax: +43-1-40400-42160 Received: 9 October 2020; Accepted: 17 November 2020; Published: 21 November 2020 Abstract: Background: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection (coronavirus disease 2019; COVID-19) is associated with adverse outcomes in patients with cardiovascular disease (CVD). The aim of the study was to characterize the interaction between SARS-CoV-2 and Angiotensin-Converting Enzyme 2 (ACE2) functional networks with a focus on CVD. Methods: Using the network medicine approach and publicly available datasets, we investigated ACE2 tissue expression and described ACE2 interaction networks that could be affected by SARS-CoV-2 infection in the heart, lungs and nervous system. -
Supporting Online Material
1 2 3 4 5 6 7 Supplementary Information for 8 9 Fractalkine-induced microglial vasoregulation occurs within the retina and is altered early in diabetic 10 retinopathy 11 12 *Samuel A. Mills, *Andrew I. Jobling, *Michael A. Dixon, Bang V. Bui, Kirstan A. Vessey, Joanna A. Phipps, 13 Ursula Greferath, Gene Venables, Vickie H.Y. Wong, Connie H.Y. Wong, Zheng He, Flora Hui, James C. 14 Young, Josh Tonc, Elena Ivanova, Botir T. Sagdullaev, Erica L. Fletcher 15 * Joint first authors 16 17 Corresponding author: 18 Prof. Erica L. Fletcher. Department of Anatomy & Neuroscience. The University of Melbourne, Grattan St, 19 Parkville 3010, Victoria, Australia. 20 Email: [email protected] ; Tel: +61-3-8344-3218; Fax: +61-3-9347-5219 21 22 This PDF file includes: 23 24 Supplementary text 25 Figures S1 to S10 26 Tables S1 to S7 27 Legends for Movies S1 to S2 28 SI References 29 30 Other supplementary materials for this manuscript include the following: 31 32 Movies S1 to S2 33 34 35 36 1 1 Supplementary Information Text 2 Materials and Methods 3 Microglial process movement on retinal vessels 4 Dark agouti rats were anaesthetized, injected intraperitoneally with rhodamine B (Sigma-Aldrich) to label blood 5 vessels and retinal explants established as described in the main text. Retinal microglia were labelled with Iba-1 6 and imaging performed on an inverted confocal microscope (Leica SP5). Baseline images were taken for 10 7 minutes, followed by the addition of PBS (10 minutes) and then either fractalkine or fractalkine + candesartan 8 (10 minutes) using concentrations outlined in the main text. -
Characterisation of Aspergillus Niger Prolyl Aminopeptidase
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Wageningen University & Research Publications Mol Gen Genomics (2005) 272: 673–679 DOI 10.1007/s00438-004-1094-5 ORIGINAL PAPER Danie¨lle E. J. W. Basten Æ Antoine P. H. A. Moers Albert J. J. van. Ooyen Æ Peter J. Schaap Characterisation of Aspergillus niger prolyl aminopeptidase Received: 29 April 2004 / Accepted: 16 November 2004 / Published online: 15 January 2005 Ó Springer-Verlag 2005 Abstract We have cloned a gene (papA) that encodes a ases and tripeptidases and finally by carboxypeptidases prolyl aminopeptidase from Aspergillus niger. Homolo- and aminopeptidases. The turnover of proteins by pro- gous genes are present in the genomes of the Eurotiales teases provides a ready pool of amino acids as precur- A. nidulans, A. fumigatus and Talaromyces emersonii, sors for the synthesis of new proteins (Bennet and Klich but the gene is not present in the genome of the yeast 1992). Saccharomyces cerevisiae. Cell extracts of strains over- Proteases normally do not hydrolyse bonds adjacent expressing the gene under the control of its own pro- to proline residues. Instead a specialised group of en- moter showed a fourfold to sixfold increase in prolyl zymes has evolved that hydrolyses these bonds. Their aminopeptidase activity, but no change in phenylalanine activity depends on both the isomeric state of the proline or leucine aminopeptidase activity. The overexpressed residue and its position in the peptide chain (Vanhoof enzyme was subsequently purified and characterised. et al. 1995; Cunningham and O’Connor 1997). Proline The enzyme specifically removes N-terminal proline and aminopeptidases (Pap, prolyl iminopeptidase, EC hydroxyproline residues from peptides. -
Secreted Metalloproteinase ADAMTS-3 Inactivates Reelin
The Journal of Neuroscience, March 22, 2017 • 37(12):3181–3191 • 3181 Cellular/Molecular Secreted Metalloproteinase ADAMTS-3 Inactivates Reelin Himari Ogino,1* Arisa Hisanaga,1* XTakao Kohno,1 Yuta Kondo,1 Kyoko Okumura,1 Takana Kamei,1 Tempei Sato,2 Hiroshi Asahara,2 Hitomi Tsuiji,1 Masaki Fukata,3 and Mitsuharu Hattori1 1Department of Biomedical Science, Graduate School of Pharmaceutical Sciences, Nagoya City University, Nagoya, Aichi 467-8603, Japan, 2Department of Systems BioMedicine, Graduate School of Medical and Dental Sciences, Tokyo Medical and Dental University, Tokyo 113-8510, Japan, and 3Division of Membrane Physiology, Department of Molecular and Cellular Physiology, National Institute for Physiological Sciences, National Institutes of Natural Sciences, Okazaki, Aichi 444-8787, Japan The secreted glycoprotein Reelin regulates embryonic brain development and adult brain functions. It has been suggested that reduced Reelin activity contributes to the pathogenesis of several neuropsychiatric and neurodegenerative disorders, such as schizophrenia and Alzheimer’s disease; however, noninvasive methods that can upregulate Reelin activity in vivo have yet to be developed. We previously found that the proteolytic cleavage of Reelin within Reelin repeat 3 (N-t site) abolishes Reelin activity in vitro, but it remains controversial as to whether this effect occurs in vivo. Here we partially purified the enzyme that mediates the N-t cleavage of Reelin from the culture supernatant of cerebral cortical neurons. This enzyme was identified as a disintegrin and metalloproteinase with thrombospondin motifs-3 (ADAMTS-3). Recombinant ADAMTS-3 cleaved Reelin at the N-t site. ADAMTS-3 was expressed in excitatory neurons in the cerebral cortex and hippocampus. -
Serine Proteases with Altered Sensitivity to Activity-Modulating
(19) & (11) EP 2 045 321 A2 (12) EUROPEAN PATENT APPLICATION (43) Date of publication: (51) Int Cl.: 08.04.2009 Bulletin 2009/15 C12N 9/00 (2006.01) C12N 15/00 (2006.01) C12Q 1/37 (2006.01) (21) Application number: 09150549.5 (22) Date of filing: 26.05.2006 (84) Designated Contracting States: • Haupts, Ulrich AT BE BG CH CY CZ DE DK EE ES FI FR GB GR 51519 Odenthal (DE) HU IE IS IT LI LT LU LV MC NL PL PT RO SE SI • Coco, Wayne SK TR 50737 Köln (DE) •Tebbe, Jan (30) Priority: 27.05.2005 EP 05104543 50733 Köln (DE) • Votsmeier, Christian (62) Document number(s) of the earlier application(s) in 50259 Pulheim (DE) accordance with Art. 76 EPC: • Scheidig, Andreas 06763303.2 / 1 883 696 50823 Köln (DE) (71) Applicant: Direvo Biotech AG (74) Representative: von Kreisler Selting Werner 50829 Köln (DE) Patentanwälte P.O. Box 10 22 41 (72) Inventors: 50462 Köln (DE) • Koltermann, André 82057 Icking (DE) Remarks: • Kettling, Ulrich This application was filed on 14-01-2009 as a 81477 München (DE) divisional application to the application mentioned under INID code 62. (54) Serine proteases with altered sensitivity to activity-modulating substances (57) The present invention provides variants of ser- screening of the library in the presence of one or several ine proteases of the S1 class with altered sensitivity to activity-modulating substances, selection of variants with one or more activity-modulating substances. A method altered sensitivity to one or several activity-modulating for the generation of such proteases is disclosed, com- substances and isolation of those polynucleotide se- prising the provision of a protease library encoding poly- quences that encode for the selected variants. -
What Is a Protease?
What is a Protease? Proteases (or peptidases) are enzymes secreted by animals for a number of physiological processes, among which is the Dr. Rolando A. Valientes digestion of feed protein. Regional Category Manager- Animals normally secrete suffi - Eubiotics / RONOZYME ProAct cient amount of enzymes to ade - Asia Pacific, DSM quately digest enough of their [email protected] feed so that they grow and remain healthy under normal conditions, such as those found in the wild. Any increased needs for protein (amino acids) for more rapid growth due to improved genetics has been traditionally met by adding more protein (or synthetic amino acids) into the feed. This was facilitated by a relative low cost for most protein-rich ingredi - Dr. Katrine Pontoppidan ents, such as soybean meal, and Research Scientist synthetic amino acids, such as Novozymes L-lysine HCL. Thus, an exogenous [email protected] protease (as a feed supplement) was not considered essential; that is, until recently. size, the rate of passage of feed Today we face not only the prob - through the digestive tract, the lem of feeding animals of continu - age of the animal, and its physio - ously increasing genetic potential logical/health condition. All of (this requires diets increasingly these variables are rather difficult richer in amino acids), but also an to control, but supplementing unprecedented rise in ingredient animal feeds with extra enzymes prices, leaving very small (if any) is rather easy if it can be done in a margin for profitability. Thus, it profitable way. has been deemed essential to seek ways to improve the nutritive Up until recently, any protease value of existing ingredients activity in commercial enzyme reducing feed cost. -
Pancancer Progression Human Vjune2017
Gene Symbol Accession Alias/Prev Symbol Official Full Name AAMP NM_001087.3 - angio-associated, migratory cell protein ABI3BP NM_015429.3 NESHBP|TARSH ABI family, member 3 (NESH) binding protein ACHE NM_000665.3 ACEE|ARACHE|N-ACHE|YT acetylcholinesterase ACTG2 NM_001615.3 ACT|ACTA3|ACTE|ACTL3|ACTSG actin, gamma 2, smooth muscle, enteric ACVR1 NM_001105.2 ACTRI|ACVR1A|ACVRLK2|ALK2|FOP|SKR1|TSRI activin A receptor, type I ACVR1C NM_145259.2 ACVRLK7|ALK7 activin A receptor, type IC ACVRL1 NM_000020.1 ACVRLK1|ALK-1|ALK1|HHT|HHT2|ORW2|SKR3|TSR-I activin A receptor type II-like 1 ADAM15 NM_207195.1 MDC15 ADAM metallopeptidase domain 15 ADAM17 NM_003183.4 ADAM18|CD156B|CSVP|NISBD|TACE ADAM metallopeptidase domain 17 ADAM28 NM_014265.4 ADAM 28|ADAM23|MDC-L|MDC-Lm|MDC-Ls|MDCL|eMDC II|eMDCII ADAM metallopeptidase domain 28 ADAM8 NM_001109.4 CD156|MS2 ADAM metallopeptidase domain 8 ADAM9 NM_001005845.1 CORD9|MCMP|MDC9|Mltng ADAM metallopeptidase domain 9 ADAMTS1 NM_006988.3 C3-C5|METH1 ADAM metallopeptidase with thrombospondin type 1 motif, 1 ADAMTS12 NM_030955.2 PRO4389 ADAM metallopeptidase with thrombospondin type 1 motif, 12 ADAMTS8 NM_007037.4 ADAM-TS8|METH2 ADAM metallopeptidase with thrombospondin type 1 motif, 8 ADAP1 NM_006869.2 CENTA1|GCS1L|p42IP4 ArfGAP with dual PH domains 1 ADD1 NM_001119.4 ADDA adducin 1 (alpha) ADM2 NM_001253845.1 AM2|dJ579N16.4 adrenomedullin 2 ADRA2B NM_000682.4 ADRA2L1|ADRA2RL1|ADRARL1|ALPHA2BAR|alpha-2BAR adrenoceptor alpha 2B AEBP1 NM_001129.3 ACLP AE binding protein 1 AGGF1 NM_018046.3 GPATC7|GPATCH7|HSU84971|HUS84971|VG5Q -
Marine Organisms: a Source of Biomedically Relevant Metallo M1
Marine organisms : a source of biomedically relevant metallo M1, M2 and M17 exopeptidase inhibitors Isel Pascual Alonso, Laura Rivera Méndez, Fabiola Almeida, Mario Ernesto Valdés Tresano, Yarini Arrebola Sánchez, Aida Hernández-Zanuy, Luis Álvarez-Lajonchere, Dagmara Díaz, Belinda Sánchez, Isabelle Florent, et al. To cite this version: Isel Pascual Alonso, Laura Rivera Méndez, Fabiola Almeida, Mario Ernesto Valdés Tresano, Yarini Arrebola Sánchez, et al.. Marine organisms : a source of biomedically relevant metallo M1, M2 and M17 exopeptidase inhibitors. REVISTA CUBANA DE CIENCIAS BIOLÓGICAS, 2020, 8 (2), pp.1- 36. hal-02944434 HAL Id: hal-02944434 https://hal.archives-ouvertes.fr/hal-02944434 Submitted on 21 Sep 2020 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. REVISTA CUBANA DE CIENCIAS BIOLÓGICAS http://www.rccb.uh.cu ARTÍCULO DE REVISIÓN Marine organisms: a source of biomedically relevant metallo M1, M2 and M17 exopeptidase inhibitors Los organismos marinos: Fuente de inhibidores de exopeptidasas de tipo metalo M1, M2 y M17 de relevancia biomédica Isel Pascual Alonso1 , Laura Rivera Méndez1 , Fabiola Almeida1 , Mario Ernesto Valdés Tresanco1,2 , Yarini Arrebola Sánchez1 , Aida Hernández-Zanuy3 , Luis Álvarez-Lajonchere4 , Dagmara Díaz1 , Belinda Sánchez5 , Isabelle Florent6 , Marjorie Schmitt7 , Miguel Cisneros8 , Jean Louis Charli8 1 Center for Protein Studies, Faculty of ABSTRACT Biology, University of Havana, Cuba. -
B Number Gene Name Mrna Intensity Mrna
sample) total list predicted B number Gene name assignment mRNA present mRNA intensity Gene description Protein detected - Membrane protein membrane sample detected (total list) Proteins detected - Functional category # of tryptic peptides # of tryptic peptides # of tryptic peptides detected (membrane b0002 thrA 13624 P 39 P 18 P(m) 2 aspartokinase I, homoserine dehydrogenase I Metabolism of small molecules b0003 thrB 6781 P 9 P 3 0 homoserine kinase Metabolism of small molecules b0004 thrC 15039 P 18 P 10 0 threonine synthase Metabolism of small molecules b0008 talB 20561 P 20 P 13 0 transaldolase B Metabolism of small molecules chaperone Hsp70; DNA biosynthesis; autoregulated heat shock b0014 dnaK 13283 P 32 P 23 0 proteins Cell processes b0015 dnaJ 4492 P 13 P 4 P(m) 1 chaperone with DnaK; heat shock protein Cell processes b0029 lytB 1331 P 16 P 2 0 control of stringent response; involved in penicillin tolerance Global functions b0032 carA 9312 P 14 P 8 0 carbamoyl-phosphate synthetase, glutamine (small) subunit Metabolism of small molecules b0033 carB 7656 P 48 P 17 0 carbamoyl-phosphate synthase large subunit Metabolism of small molecules b0048 folA 1588 P 7 P 1 0 dihydrofolate reductase type I; trimethoprim resistance Metabolism of small molecules peptidyl-prolyl cis-trans isomerase (PPIase), involved in maturation of b0053 surA 3825 P 19 P 4 P(m) 1 GenProt outer membrane proteins (1st module) Cell processes b0054 imp 2737 P 42 P 5 P(m) 5 GenProt organic solvent tolerance Cell processes b0071 leuD 4770 P 10 P 9 0 isopropylmalate -
The Involvement of Cysteine Proteases and Protease Inhibitor Genes in the Regulation of Programmed Cell Death in Plants
The Plant Cell, Vol. 11, 431–443, March 1999, www.plantcell.org © 1999 American Society of Plant Physiologists The Involvement of Cysteine Proteases and Protease Inhibitor Genes in the Regulation of Programmed Cell Death in Plants Mazal Solomon,a,1 Beatrice Belenghi,a,1 Massimo Delledonne,b Ester Menachem,a and Alex Levine a,2 a Department of Plant Sciences, Hebrew University of Jerusalem, Givat-Ram, Jerusalem 91904, Israel b Istituto di Genetica, Università Cattolica S.C., Piacenza, Italy Programmed cell death (PCD) is a process by which cells in many organisms die. The basic morphological and bio- chemical features of PCD are conserved between the animal and plant kingdoms. Cysteine proteases have emerged as key enzymes in the regulation of animal PCD. Here, we show that in soybean cells, PCD-activating oxidative stress in- duced a set of cysteine proteases. The activation of one or more of the cysteine proteases was instrumental in the PCD of soybean cells. Inhibition of the cysteine proteases by ectopic expression of cystatin, an endogenous cysteine pro- tease inhibitor gene, inhibited induced cysteine protease activity and blocked PCD triggered either by an avirulent strain of Pseudomonas syringae pv glycinea or directly by oxidative stress. Similar expression of serine protease inhib- itors was ineffective. A glutathione S-transferase–cystatin fusion protein was used to purify and characterize the in- duced proteases. Taken together, our results suggest that plant PCD can be regulated by activity poised between the cysteine proteases and the cysteine protease inhibitors. We also propose a new role for proteinase inhibitor genes as modulators of PCD in plants.