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Keywords: protein engineering
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Articles
Journal:
Biochemical Journal
Biochem J (2023) 480 (16): 1317–1330.
Published: 25 August 2023
...-targeting chimeras DUBs deubiquitinases GFP green fluorescent protein JAMM JAB1/MPN/Mov34 metalloproteases OTUD1 O varian tu mor domain-containing d eubiquitinase 1 UBDs ubiquitin binding domains deubiquitinases inhibitor phage display protein engineering...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2023) 480 (14): 1097–1107.
Published: 17 July 2023
... ]. J.S.M. is supported by the US-Israel Binational Science Foundation (BSF) 2017207, NIH R01CA258274, Israel Cancer Research Foundation (ICRF), Israel Science Foundation (3486/20), and the U. of Toronto/HUJI research alliance in protein engineering. Open access for this article was enabled...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2023) 480 (2): 127–140.
Published: 23 January 2023
... 2023 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2023 protein engineering signaling pathways synthetic biology More than six decades ago, Jacob and Monod proposed a groundbreaking perspective on how genetic information is organized...
Articles
Journal:
Biochemical Journal
Biochem J (2021) 478 (15): 3047–3062.
Published: 13 August 2021
... enzyme activation metalloenzymes molecular mechanisms protein engineering Metals are present as structural features in over one-third of proteins, underscoring their importance for protein structure and function [ 1 , 2 ]. The incorporation of divalent metal ions into protein structures...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2020) 477 (9): 1701–1719.
Published: 11 May 2020
...@bgu.ac.il ) 3 3 2020 11 4 2020 14 4 2020 15 4 2020 © 2020 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2020 metalloproteases next-generation sequencing protease inhibitor protein engineering protein–protein interactions...
Includes: Supplementary data
Articles
Matthew J. Byrne, Nazia Nasir, Christine Basmadjian, Chitra Bhatia, Rory F. Cunnison, Katherine H. Carr, Corine Mas-Droux, Sharon Yeoh, Céline Cano, Richard Bayliss
Journal:
Biochemical Journal
Biochem J (2020) 477 (8): 1525–1539.
Published: 29 April 2020
... and distributed under the Creative Commons Attribution License 4.0 (CC BY) . kinases protein engineering small molecules The NIMA-related kinases (Neks) are a family of Ser/Thr protein kinases, first discovered in Aspergillus nidulans that are conserved in eukaryotes [ 1 ]. Nek7 is 1 of 11 Neks...
Articles
Journal:
Biochemical Journal
Biochem J (2020) 477 (8): 1483–1497.
Published: 29 April 2020
... to previous studies from a structural perspective. These clashes would potentially lead to reduced substrate binding affinity of McTadA, consistent with our in vitro deamination activity and binding assays. To rescue the deamination activity of McTadA, we carried out two rounds of protein engineering through...
Includes: Supplementary data
Articles
Aaron M. Collier, Yuliya Nemtsova, Narendra Kuber, Whitney Banach-Petrosky, Anurag Modak, David E. Sleat, Vikas Nanda, Peter Lobel
Journal:
Biochemical Journal
Biochem J (2020) 477 (3): 727–745.
Published: 14 February 2020
... tripeptidyl-peptidase 1 (TPP1). Progression of LINCL can be slowed or halted by enzyme replacement therapy, where recombinant human TPP1 is administered to patients. In this study, we utilized protein engineering techniques to increase the stability of recombinant TPP1 with the rationale that this may...
Includes: Supplementary data
Articles
Gloria Gamiz-Arco, Valeria A. Risso, Adela M. Candel, Alvaro Inglés-Prieto, Maria L. Romero-Romero, Eric A. Gaucher, Jose A. Gavira, Beatriz Ibarra-Molero, Jose M. Sanchez-Ruiz
Journal:
Biochemical Journal
Biochem J (2019) 476 (23): 3631–3647.
Published: 10 December 2019
... to be functional. It follows that the most ancient proteins could plausibly fold with little or no assistance. Therefore, unassisted folding may have been relevant at a primordial stage, prior to (or concomitantly with) the emergence of folding assistance. molecular evolution protein engineering protein...
Includes: Supplementary data
Articles
Nikolina Trstenjak, Lukas Stulik, Harald Rouha, Jakub Zmajkovic, Manuel Zerbs, Eszter Nagy, Adriana Badarau
Journal:
Biochemical Journal
Biochem J (2019) 476 (2): 275–292.
Published: 25 January 2019
... 2018 17 12 2018 © 2019 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2019 leukocidin protein engineering species adaptation S. aureus Staphylococcus aureus is a major human pathogen, both in the hospital setting...
Includes: Supplementary data
Articles
Yang Xu, Kristian Mark P. Caldo, Roman Holic, Elzbieta Mietkiewska, Jocelyn Ozga, Syed Masood Rizvi, Guanqun Chen, Randall J. Weselake
Journal:
Biochemical Journal
Biochem J (2019) 476 (1): 151–164.
Published: 15 January 2019
.... Weselake ( randall.weselake@ualberta.ca ) 1 10 2018 11 12 2018 17 12 2018 17 12 2018 © 2019 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2019 Arabidopsis thaliana error-prone PCR LACS protein engineering Saccharomyces...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2018) 475 (23): 3887–3901.
Published: 12 December 2018
...). Published by Portland Press Limited on behalf of the Biochemical Society 2018 homoserine malate dehydrogenase protein engineering site-directed mutagenesis synthetic biology A central challenge in the creation of a resource-efficient and sustainable bioeconomy lies in the reduction in our...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2018) 475 (7): 1335–1352.
Published: 16 April 2018
... of closely related molecules, some of which perform key biological functions or serve protective roles in the context of cancer [ 8 ]. directed evolution protease inhibitor protein engineering protein–protein interactions (PPIs) serine proteases Progress curves for human trypsins were generated...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2017) 474 (1): 1–19.
Published: 22 December 2016
... sequences and limited phylogenetic trees. This review will focus, firstly, on the use of ASR to uncover links between sequence and phenotype and, secondly, on the practical application of ASR in protein engineering. Correspondence: Elizabeth M.J. Gillam ( e.gillam@uq.edu.au ) 27 5 2016 7 11...
Articles
M. Luisa Romero-Romero, Valeria A. Risso, Sergio Martinez-Rodriguez, Beatriz Ibarra-Molero, Jose M. Sanchez-Ruiz
Journal:
Biochemical Journal
Biochem J (2016) 473 (20): 3611–3620.
Published: 11 October 2016
... , 21071 – 21076 doi: 10.1073/pnas.1314781111 protein engineering protein stability resurrected proteins thioredoxin The engineering of proteins with enhanced stability has drawn considerable attention for many years [ 1 , 2 ]. Stabilized proteins are useful in biotechnological...
Articles
Sabine Rauth, Dominik Hinz, Michael Börger, Markus Uhrig, Manuel Mayhaus, Matthias Riemenschneider, Arne Skerra
Journal:
Biochemical Journal
Biochem J (2016) 473 (11): 1563–1578.
Published: 27 May 2016
... inhibit their aggregation, thus providing novel reagents to study the molecular pathology of Alzheimer's disease (AD) and alternative drug candidates compared with current biopharmaceutical treatments. Aβ peptide lipocalin neurodegeneration protein engineering Alzheimer's disease (AD...
Includes: Supplementary data
Articles
Itay Cohen, Olumide Kayode, Alexandra Hockla, Banumathi Sankaran, Derek C. Radisky, Evette S. Radisky, Niv Papo
Journal:
Biochemical Journal
Biochem J (2016) 473 (10): 1329–1341.
Published: 11 May 2016
... enzyme inhibition mesotrypsin protease inhibitor protein engineering proteolysis X-ray structure The human serine protease mesotrypsin, encoded by the PRSS3 gene, has recently emerged as a compelling new candidate drug target in cancer. Although its specific pathological roles are yet...
Includes: Supplementary data
Articles
Christopher F. Butler, Caroline Peet, Kirsty J. McLean, Michael T. Baynham, Richard T. Blankley, Karl Fisher, Stephen E. J. Rigby, David Leys, Michael W. Voice, Andrew W. Munro
Journal:
Biochemical Journal
Biochem J (2014) 460 (2): 247–259.
Published: 13 May 2014
...-oxygenase were shown to catalyse oxidation of several proton pump inhibitor drugs, and to generate products identical to those formed by major human drug metabolizing P450s. crystal structure cytochrome P450 drug metabolism protein engineering proton pump inhibitor Replacing traditional...
Includes: Supplementary data
Articles
Emily Golden, Rachel Paterson, Wan Jun Tie, Anandhi Anandan, Gavin Flematti, Gianluca Molla, Elena Rosini, Loredano Pollegioni, Alice Vrielink
Journal:
Biochemical Journal
Biochem J (2013) 451 (2): 217–226.
Published: 28 March 2013
... structure enzyme activity protein engineering substrate specificity transition state analogue Cephalosporins are currently the most widely prescribed class of antibiotics on the market and are used to treat both Gram-positive and Gram-negative bacteria (reviewed in [ 1 ]). They act by inhibiting...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2011) 440 (1): 95–105.
Published: 27 October 2011
...) (4) 3 5 2011 18 7 2011 2 8 2011 2 8 2011 © The Authors Journal compilation © 2011 Biochemical Society 2011 crystal structure drug discovery endopeptidase enzyme inhibition mesotrypsin protease inhibitor protein engineering Proteases...
Articles
Tana Koudelakova, Eva Chovancova, Jan Brezovsky, Marta Monincova, Andrea Fortova, Jiri Jarkovsky, Jiri Damborsky
Journal:
Biochemical Journal
Biochem J (2011) 435 (2): 345–354.
Published: 29 March 2011
... ). 1 9 2010 14 1 2011 4 2 2011 4 2 2011 © The Authors Journal compilation © 2011 Biochemical Society 2011 haloalkane dehalogenase phylogenetic analysis principal component analysis protein engineering substrate specificity Enzymes are biological catalysts...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2011) 435 (1): 55–63.
Published: 15 March 2011
... the program SFCHECK from CCP4. The off-rate of biotin-4-fluorescein was measured from the fluorescence increase on unbinding at 37 °C with competing free biotin, as previously described [ 26 , 31 ]. avidin biotin protein engineering protein–ligand interaction streptavidin traptavidin...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2011) 435 (1): 1–16.
Published: 15 March 2011
... degradation protein engineering trypsin fold Table 1 FDA-approved protease drugs BHK, baby hamster kidney. Usage Protease Indications Source of protein Target protein or pathway Type of protease Year approved by FDA Thrombolysis Urokinase (u-PA) Thrombus, catheter...
Includes: Supplementary data
Articles
Florian Nachon, Eugenie Carletti, Marielle Wandhammer, Yvain Nicolet, Lawrence M. Schopfer, Patrick Masson, Oksana Lockridge
Journal:
Biochemical Journal
Biochem J (2011) 434 (1): 73–82.
Published: 27 January 2011
... superimpose very well (RMSD=0.225 Å). © The Authors Journal compilation © 2011 Biochemical Society 2011 acetylcholinesterase bioscavenger butyrylcholinesterase organophosphorus protein engineering spontaneous reactivation Recent progress in the understanding of enzyme catalysis, through...
Articles
Journal:
Biochemical Journal
Biochem J (2008) 414 (2): 205–214.
Published: 12 August 2008
... /O 2 /CO 2 mixtures controlled using Aalborg GFC mass flow controllers. chaperonin CO 2 fixation directed evolution protein engineering RbcX ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) Rubisco [ribulose-P 2 (D-ribulose-1,5-bisphosphate) carboxylase/oxygenase; EC...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2007) 404 (3): 517–524.
Published: 29 May 2007
... PCC6301 rbc L increased the fitness of the host E. coli cell during selection. CO 2 fixation directed evolution metabolic engineering protein engineering ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) Rubisco (ribulose-1,5-bisphosphate carboxylase/oxygenase) catalyses...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2006) 397 (2): 305–312.
Published: 28 June 2006
... mutations are required to generate a mutant with the desired properties. bioluminescence assay firefly luciferase imaging Photinus pyralis protein engineering Beetle luciferases catalyse the efficient transfer of chemical energy into light via a two-step process, utilizing ATP-Mg 2...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2006) 394 (1): 85–93.
Published: 27 January 2006
... activity of these peptides [ 7 ]. 1 To whom correspondence should be addressed (email d.craik@imb.uq.edu.au ). 19 10 2005 18 11 2005 21 11 2005 21 11 2005 The Biochemical Society, London 2006 cyclic protein cyclotide haemolytic activity kalata NMR protein...
Articles
Henri R. Nordlund, Vesa P. Hytönen, Jarno Hörhä, Juha A. E. Määttä, Daniel J. White, Katrin Halling, Eevaleena J. Porkka, J. Peter Slotte, Olli H. Laitinen, Markku S. Kulomaa
Journal:
Biochemical Journal
Biochem J (2005) 392 (3): 485–491.
Published: 06 December 2005
... chain. In contrast with wild-type avidin, which contains four identical avidin monomers, scAvd enables each one of the four avidin domains to be independently modified by protein engineering. Therefore the scAvd scaffold can be used to construct spatially and stoichiometrically defined pseudotetrameric...
Articles
Journal:
Biochemical Journal
Biochem J (2004) 382 (3): 885–893.
Published: 07 September 2004
... be addressed (email Lambrou@aua.gr ). 24 2 2004 25 5 2004 11 6 2004 15 6 2004 Cibacron Blue 3GA glutathione S-transferase herbicide detoxification ligandin protein engineering triazine dye GSTs (glutathione S-transferases; EC 2.5.1.18) are dimeric detoxification...
Articles
Journal:
Biochemical Journal
Biochem J (2003) 371 (2): 369–376.
Published: 15 April 2003
... 2003 30 1 2003 30 1 2003 The Biochemical Society, London ©2003 2003 binding affinity conformation tuning protein engineering Abbreviations used: ADAM, a disintegrin and metalloproteinase; DMEM, Dulbecco's modified Eagle's medium; ECM, extracellular matrix; EGF...
Articles
Tiila-Riikka KIEMA, Jukka P. TASKINEN, Päivi L. PIRILÄ, Kari T. KOIVURANTA, Rik K. WIERENGA, J. Kalervo HILTUNEN
Journal:
Biochemical Journal
Biochem J (2002) 367 (2): 433–441.
Published: 15 October 2002
...; mfeHAD, HAD part of MFE-1; perMFE-1, mammalian peroxisomal MFE-1; PTS-1, peroxisomal targeting signal type 1. β-oxidation lipid metabolism peroxisome protein engineering structure–function The Biochemical Society, London ©2002 2002 19 2 2002 18 6 2002 10 7 2002 10...
Articles
Journal:
Biochemical Journal
Biochem J (2002) 362 (2): 265–271.
Published: 22 February 2002
... and L-3 were found to be the major determinants of the receptor- and TTR-binding speci- ficities respectively. Thus we demonstrate that lipocalins serve as excellent scaffolds for engineering novel biological functions. Key words: vitamin A, lipocalin, protein engineering, RBP ERABP chimaera, RBP...
Articles
Journal:
Biochemical Journal
Biochem J (2001) 359 (3): 715–720.
Published: 25 October 2001
... from those of abolishing hydrogen-bond donor potential. This suggests that Trp-59 has both a local and a global stability effect by solvating a buried charge and by having a key role in the packing of the cytochrome c hydrophobic core. Key words: non-coded amino acids, protein engineering, semi...
Articles
Xiaojun REN, Shujuan GAO, Delin YOU, Hualiang HUANG, Zi LIU, Ying MU, Junqiu LIU, Yan ZHANG, Ganglin YAN, Guimin LUO, Tongshu YANG, Jiacong SHEN
Journal:
Biochemical Journal
Biochem J (2001) 359 (2): 369–374.
Published: 08 October 2001
... words: artificial enzyme, chemical mutation, enzyme mimics, protein engineering, selenium. is highly expressed in the mucosal epithelium of the gastro- intestinal tract [9,10]. Of these forms, GSHPx-1 has been well studied [3]. The mechanism by which GSHPx-1 catalyses the breakdown of hydroperoxides has...
Articles
Journal:
Biochemical Journal
Biochem J (2001) 358 (1): 101–110.
Published: 08 August 2001
...2001 2001 essential dynamics herbicide detoxification molecular dynamics protein engineering Abbreviations used: CDNB, 1-chloro-2,4-dinitrobenzene; G-site, GSH binding site; GST, glutathione S-transferase; H-site, electrophile binding site; Ni-NTA, Ni 2+ -nitrilotriacetate. Biochem...
Articles
Journal:
Biochemical Journal
Biochem J (2001) 358 (1): 241–247.
Published: 08 August 2001
... be addressed (e-mail piccoli@unina.it ). 7 3 2001 10 4 2001 11 6 2001 The Biochemical Society, London ©2001 2001 antitumour agents protein engineering ribonucleases RNase inhibitor Abbreviations used: BS-RNase, bovine seminal RNase; cRI, cytosolic RNase inhibitor; DTT...
Articles
Journal:
Biochemical Journal
Biochem J (2001) 354 (2): 455–463.
Published: 22 February 2001
... properties of His- 311 are important for enzyme function. An important structural role has also been attributed to cis-Pro-288. This residue may provide the key residues Gln-287 and His-311 with the proper orientation for productive binding of formate. Key words: kinetic mechanism, protein engineering, site...
Articles
Claire LEADBEATER, Lisa MCIVER, Dominic J. CAMPOPIANO, Scott P. WEBSTER, Robert L. BAXTER, Sharon M. KELLY, Nicholas C. PRICE, Dominikus A. LYSEK, Michael A. NOBLE, Stephen K. CHAPMAN, Andrew W. MUNRO
Journal:
Biochemical Journal
Biochem J (2000) 352 (2): 257–266.
Published: 24 November 2000
... and R184 located close to the adenosine ribose 2«-phosphate group, and R144 likely to interact with the nicotinamide ribose 5«-phosphate group. Key words: coenzyme affinity, enzyme kinetics, flavodoxin NADP+ oxidoreductase, protein engineering. with other members of the ferredoxin reductase family...
Articles
Journal:
Biochemical Journal
Biochem J (2000) 350 (1): 31–39.
Published: 09 August 2000
... 25 5 2000 The Biochemical Society, London © 2000 2000 protein secretion protein engineering cell walls α-amylase Biochem. J. (2000) 350, 31 39 (Printed in Great Britain) 31 The influence of secretory-protein charge on late stages of secretion from the Gram-positive bacterium...
Articles
Journal:
Biochemical Journal
Biochem J (2000) 345 (3): 687–692.
Published: 25 January 2000
... biocatalysis dehydrogenases opiates protein engineering Biochem. J. (2000) 345, 687 692 (Printed in Great Britain) 687 Mechanistic studies of morphine dehydrogenase and stabilization against covalent inactivation Edward H. WALKER1, Christopher E. FRENCH2, Deborah A. RATHBONE and Neil C. BRUCE3 Institute...
Articles
Journal:
Biochemical Journal
Biochem J (2000) 345 (2): 247–254.
Published: 10 January 2000
... of the location of the ligand on the toxin and they were found to release the restrictocin fragment efficiently on proteolysis in itro. Key words: chimaeric toxins, protease, protein engineering, targeting, toxins. an intervening specific protease recognition site made them cytotoxic [12,13]. Chimaeric toxins...
Articles
Amine ABBADI, Monika BRUMMEL, Burkhardt S. SCHüTT, Mary B. SLABAUGH, Ricardo SCHUCH, Friedrich SPENER
Journal:
Biochemical Journal
Biochem J (2000) 345 (1): 153–160.
Published: 17 December 1999
... synthesis protein engineering Biochem. J. (2000) 345, 153 160 (Printed in Great Britain) 153 Reaction mechanism of recombinant 3-oxoacyl-(acyl-carrier-protein) synthase III from Cuphea wrightii embryo, a fatty acid synthase type II condensing enzyme Amine ABBADI*, Monika BRUMMEL*, Burkhardt S. SCHU$ TT...
Articles
Journal:
Biochemical Journal
Biochem J (1999) 341 (1): 139–145.
Published: 24 June 1999
...). 4 1 1999 30 3 1999 23 4 1999 The Biochemical Society, London © 1999 1999 acceptor-binding affinity ammodytoxin enzyme activity protein engineering Vipera ammodytes ammodytes Biochem. J. (1999) 341, 139 145 (Printed in Great Britain) 139 An aromatic, but not a basic...
Articles
Journal:
Biochemical Journal
Biochem J (1999) 339 (2): 309–317.
Published: 08 April 1999
... to denaturants such as guanidine HCl and urea was revealed; the wild-type protein always proved to be the most resistant. The results obtained show the importance of hydrogen bonds and ion pairs in determining protein stability and confirm that simulation methods are able to direct protein engineering in site...