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Development of an OTUD1 ubiquitin variant inhibitor

Qi Liu, Evan Mallette, Hui Zheng, Wei Zhang

Biochem J (2023) 480 (16): 1317–1330.

https://doi.org/10.1042/BCJ20230119

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...

View article titled, Development of an OTUD1 ubiquitin variant inhibitor

Includes: Supplementary data

Articles

Computational design of Matrix Metalloproteinase-9 (MMP-9) resistant to auto-cleavage

Alessandro Bonadio, Solomon Oguche, Tali Lavy, Oded Kleifeld, Julia Shifman

Biochem J (2023) 480 (14): 1097–1107.

https://doi.org/10.1042/BCJ20230139

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...

View article titled, Computational design of Matrix Metalloproteinase-9 (MMP-9) resistant to auto-cleavage

Includes: Supplementary data

Articles

Structural features of sensory two component systems: a synthetic biology perspective

Marcos Nieves, Alejandro Buschiazzo, Felipe Trajtenberg

Biochem J (2023) 480 (2): 127–140.

https://doi.org/10.1042/BCJ20210798

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...

View article titled, Structural features of sensory two component systems: a synthetic biology perspective

Articles

Engineering potassium activation into biosynthetic thiolase

Andrew C. Marshall, John B. Bruning

Biochem J (2021) 478 (15): 3047–3062.

https://doi.org/10.1042/BCJ20210455

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...

View article titled, Engineering potassium activation into biosynthetic thiolase

Includes: Supplementary data

Articles

Quantitative mapping of binding specificity landscapes for homologous targets by using a high-throughput method

Lidan Aharon, Shay-Lee Aharoni, Evette S. Radisky, Niv Papo

Biochem J (2020) 477 (9): 1701–1719.

https://doi.org/10.1042/BCJ20200188

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...

View article titled, Quantitative mapping of binding specificity landscapes for homologous targets by using a high-throughput method

Includes: Supplementary data

Articles

Nek7 conformational flexibility and inhibitor binding probed through protein engineering of the R-spine

Matthew J. Byrne, Nazia Nasir, Christine Basmadjian, Chitra Bhatia, Rory F. Cunnison, Katherine H. Carr, Corine Mas-Droux, Sharon Yeoh, Céline Cano, Richard Bayliss

Biochem J (2020) 477 (8): 1525–1539.

https://doi.org/10.1042/BCJ20200128

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...

View article titled, Nek7 conformational flexibility and inhibitor binding probed through protein engineering of the R-spine

Articles

Structure of a tRNA-specific deaminase with compromised deamination activity

Huijuan Liu, Saibin Wu, Dewei Ran, Wei Xie

Biochem J (2020) 477 (8): 1483–1497.

https://doi.org/10.1042/BCJ20190858

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...

View article titled, Structure of a tRNA-specific deaminase with compromised deamination activity

Includes: Supplementary data

Articles

Lysosomal protein thermal stability does not correlate with cellular half-life: global observations and a case study of tripeptidyl-peptidase 1

Aaron M. Collier, Yuliya Nemtsova, Narendra Kuber, Whitney Banach-Petrosky, Anurag Modak, David E. Sleat, Vikas Nanda, Peter Lobel

Biochem J (2020) 477 (3): 727–745.

https://doi.org/10.1042/BCJ20190874

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...

View article titled, Lysosomal protein thermal stability does not correlate with cellular half-life: global observations and a case study of tripeptidyl-peptidase 1

Includes: Supplementary data

Articles

Non-conservation of folding rates in the thioredoxin family reveals degradation of ancestral unassisted-folding

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

Biochem J (2019) 476 (23): 3631–3647.

https://doi.org/10.1042/BCJ20190739

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...

View article titled, Non-conservation of folding rates in the thioredoxin family reveals degradation of ancestral unassisted-folding

Includes: Supplementary data

Articles

Adaptation of the Staphylococcus aureus leukocidin LukGH for the rabbit host by protein engineering

Nikolina Trstenjak, Lukas Stulik, Harald Rouha, Jakub Zmajkovic, Manuel Zerbs, Eszter Nagy, Adriana Badarau

Biochem J (2019) 476 (2): 275–292.

https://doi.org/10.1042/BCJ20180691

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...

View article titled, Adaptation of the Staphylococcus aureus leukocidin LukGH for the rabbit host by protein engineering

Includes: Supplementary data

Articles

Engineering Arabidopsis long-chain acyl-CoA synthetase 9 variants with enhanced enzyme activity

Yang Xu, Kristian Mark P. Caldo, Roman Holic, Elzbieta Mietkiewska, Jocelyn Ozga, Syed Masood Rizvi, Guanqun Chen, Randall J. Weselake

Biochem J (2019) 476 (1): 151–164.

https://doi.org/10.1042/BCJ20180787

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...

View article titled, Engineering Arabidopsis long-chain acyl-CoA synthetase 9 variants with enhanced enzyme activity

Includes: Supplementary data

Articles

Rational engineering of a malate dehydrogenase for microbial production of 2,4-dihydroxybutyric acid via homoserine pathway

Cláudio J.R. Frazão, Christopher M. Topham, Yoann Malbert, Jean Marie François, Thomas Walther

Biochem J (2018) 475 (23): 3887–3901.

https://doi.org/10.1042/BCJ20180765

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...

View article titled, Rational engineering of a malate dehydrogenase for microbial production of 2,4-dihydroxybutyric acid via homoserine pathway

Includes: Supplementary data

Articles

Pre-equilibrium competitive library screening for tuning inhibitor association rate and specificity toward serine proteases

Itay Cohen, Si Naftaly, Efrat Ben-Zeev, Alexandra Hockla, Evette S. Radisky, Niv Papo

Biochem J (2018) 475 (7): 1335–1352.

https://doi.org/10.1042/BCJ20180070

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...

View article titled, Pre-equilibrium competitive library screening for tuning inhibitor association rate and specificity toward serine proteases

Includes: Supplementary data

Articles

Exploring the past and the future of protein evolution with ancestral sequence reconstruction: the ‘retro’ approach to protein engineering

Yosephine Gumulya, Elizabeth M.J. Gillam

Biochem J (2017) 474 (1): 1–19.

https://doi.org/10.1042/BCJ20160507

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...

View article titled, Exploring the past and the future of protein evolution with ancestral sequence reconstruction: the ‘retro’ approach to protein engineering

Articles

Engineering ancestral protein hyperstability

M. Luisa Romero-Romero, Valeria A. Risso, Sergio Martinez-Rodriguez, Beatriz Ibarra-Molero, Jose M. Sanchez-Ruiz

Biochem J (2016) 473 (20): 3611–3620.

https://doi.org/10.1042/BCJ20160532

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...

View article titled, Engineering ancestral protein hyperstability

Articles

High-affinity Anticalins with aggregation-blocking activity directed against the Alzheimer β-amyloid peptide

Sabine Rauth, Dominik Hinz, Michael Börger, Markus Uhrig, Manuel Mayhaus, Matthias Riemenschneider, Arne Skerra

Biochem J (2016) 473 (11): 1563–1578.

https://doi.org/10.1042/BCJ20160114

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...

View article titled, High-affinity Anticalins with aggregation-blocking activity directed against the Alzheimer β-amyloid peptide

Includes: Supplementary data

Articles

Combinatorial protein engineering of proteolytically resistant mesotrypsin inhibitors as candidates for cancer therapy

Itay Cohen, Olumide Kayode, Alexandra Hockla, Banumathi Sankaran, Derek C. Radisky, Evette S. Radisky, Niv Papo

Biochem J (2016) 473 (10): 1329–1341.

https://doi.org/10.1042/BJ20151410

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...

View article titled, Combinatorial protein engineering of proteolytically resistant mesotrypsin inhibitors as candidates for cancer therapy

Includes: Supplementary data

Articles

Human P450-like oxidation of diverse proton pump inhibitor drugs by ‘gatekeeper’ mutants of flavocytochrome P450 BM3

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

Biochem J (2014) 460 (2): 247–259.

https://doi.org/10.1042/BJ20140030

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...

View article titled, Human P450-like oxidation of diverse proton pump inhibitor drugs by ‘gatekeeper’ mutants of flavocytochrome P450 BM3

Includes: Supplementary data

Articles

Structure of a class III engineered cephalosporin acylase: comparisons with class I acylase and implications for differences in substrate specificity and catalytic activity

Emily Golden, Rachel Paterson, Wan Jun Tie, Anandhi Anandan, Gavin Flematti, Gianluca Molla, Elena Rosini, Loredano Pollegioni, Alice Vrielink

Biochem J (2013) 451 (2): 217–226.

https://doi.org/10.1042/BJ20121715

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...

View article titled, Structure of a class III engineered cephalosporin acylase: comparisons with class I acylase and implications for differences in substrate specificity and catalytic activity

Includes: Supplementary data

Articles

The P 2 ′ residue is a key determinant of mesotrypsin specificity: engineering a high-affinity inhibitor with anticancer activity

Moh'd A. Salameh, Alexei S. Soares, Alexandra Hockla, Derek C. Radisky, Evette S. Radisky

Biochem J (2011) 440 (1): 95–105.

https://doi.org/10.1042/BJ20110788

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...

View article titled, The P 2 ′ residue is a key determinant of mesotrypsin specificity: engineering a high-affinity inhibitor with anticancer activity

Articles

Substrate specificity of haloalkane dehalogenases

Tana Koudelakova, Eva Chovancova, Jan Brezovsky, Marta Monincova, Andrea Fortova, Jiri Jarkovsky, Jiri Damborsky

Biochem J (2011) 435 (2): 345–354.

https://doi.org/10.1042/BJ20101405

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...

View article titled, Substrate specificity of haloalkane dehalogenases

Includes: Supplementary data

Articles

How the biotin–streptavidin interaction was made even stronger: investigation via crystallography and a chimaeric tetramer

Claire E. Chivers, Apurba L. Koner, Edward D. Lowe, Mark Howarth

Biochem J (2011) 435 (1): 55–63.

https://doi.org/10.1042/BJ20101593

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...

View article titled, How the biotin–streptavidin interaction was made even stronger: investigation via crystallography and a chimaeric tetramer

Includes: Supplementary data

Articles

Proteases as therapeutics

Charles S. Craik, Michael J. Page, Edwin L. Madison

Biochem J (2011) 435 (1): 1–16.

https://doi.org/10.1042/BJ20100965

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...

View article titled, Proteases as therapeutics

Includes: Supplementary data

Articles

X-ray crystallographic snapshots of reaction intermediates in the G117H mutant of human butyrylcholinesterase, a nerve agent target engineered into a catalytic bioscavenger

Florian Nachon, Eugenie Carletti, Marielle Wandhammer, Yvain Nicolet, Lawrence M. Schopfer, Patrick Masson, Oksana Lockridge

Biochem J (2011) 434 (1): 73–82.

https://doi.org/10.1042/BJ20101648

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...

View article titled, X-ray crystallographic snapshots of reaction intermediates in the G117H mutant of human butyrylcholinesterase, a nerve agent target engineered into a catalytic bioscavenger

Articles

Evolving improved Synechococcus Rubisco functional expression in Escherichia coli

Oliver Mueller-Cajar, Spencer M. Whitney

Biochem J (2008) 414 (2): 205–214.

https://doi.org/10.1042/BJ20080668

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...

View article titled, Evolving improved Synechococcus Rubisco functional expression in Escherichia coli

Includes: Supplementary data

Articles

Artificially evolved Synechococcus PCC6301 Rubisco variants exhibit improvements in folding and catalytic efficiency

Dina N. Greene, Spencer M. Whitney, Ichiro Matsumura

Biochem J (2007) 404 (3): 517–524.

https://doi.org/10.1042/BJ20070071

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...

View article titled, Artificially evolved Synechococcus PCC6301 Rubisco variants exhibit improvements in folding and catalytic efficiency

Includes: Supplementary data

Articles

Mutagenesis of solvent-exposed amino acids in Photinus pyralis luciferase improves thermostability and pH-tolerance

G. H. Erica Law, Olga A. Gandelman, Laurence C. Tisi, Christopher R. Lowe, James A. H. Murray

Biochem J (2006) 397 (2): 305–312.

https://doi.org/10.1042/BJ20051847

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...

View article titled, Mutagenesis of solvent-exposed amino acids in Photinus pyralis luciferase improves thermostability and pH-tolerance

Includes: Supplementary data

Articles

Structural plasticity of the cyclic-cystine-knot framework: implications for biological activity and drug design

Richard J. Clark, Norelle L. Daly, David J. Craik

Biochem J (2006) 394 (1): 85–93.

https://doi.org/10.1042/BJ20051691

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...

View article titled, Structural plasticity of the cyclic-cystine-knot framework: implications for biological activity and drug design

Articles

Tetravalent single-chain avidin: from subunits to protein domains via circularly permuted avidins

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

Biochem J (2005) 392 (3): 485–491.

https://doi.org/10.1042/BJ20051038

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...

View article titled, Tetravalent single-chain avidin: from subunits to protein domains via circularly permuted avidins

Articles

Characterization of the ligandin site of maize glutathione S-transferase I

Irine A. AXARLI, Daniel J. RIGDEN, Nikolaos E. LABROU

Biochem J (2004) 382 (3): 885–893.

https://doi.org/10.1042/BJ20040298

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...

View article titled, Characterization of the ligandin site of maize glutathione S-transferase I

Articles

Tailoring tissue inhibitor of metalloproteinases-3 to overcome the weakening effects of the cysteine-rich domains of tumour necrosis factor-alpha converting enzyme

Meng-Huee LEE, Philippa DODDS, Vandana VERMA, Klaus MASKOS, Vera KNÄUPER, Gillian MURPHY

Biochem J (2003) 371 (2): 369–376.

https://doi.org/10.1042/bj20021538

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...

View article titled, Tailoring tissue inhibitor of metalloproteinases-3 to overcome the weakening effects of the cysteine-rich domains of tumour necrosis factor-alpha converting enzyme

Articles

Organization of the multifunctional enzyme type 1: interaction between N- and C-terminal domains is required for the hydratase-1/isomerase activity

Tiila-Riikka KIEMA, Jukka P. TASKINEN, Päivi L. PIRILÄ, Kari T. KOIVURANTA, Rik K. WIERENGA, J. Kalervo HILTUNEN

Biochem J (2002) 367 (2): 433–441.

https://doi.org/10.1042/bj20020292

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...

View article titled, Organization of the multifunctional enzyme type 1: interaction between N- and C-terminal domains is required for the hydratase-1/isomerase activity

Articles

The transfer of transthyretin and receptor-binding properties from the plasma retinol-binding protein to the epididymal retinoic acid-binding protein

Manickavasagam SUNDARAM, Daan M. F. van AALTEN, John B. C. FINDLAY, Asipu SIVAPRASADARAO

Biochem J (2002) 362 (2): 265–271.

https://doi.org/10.1042/bj3620265

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...

View article titled, The transfer of transthyretin and receptor-binding properties from the plasma retinol-binding protein to the epididymal retinoic acid-binding protein

Articles

Conserved tryptophan in cytochrome c: importance of the unique side-chain features of the indole moiety

Karen M. BLACK, Ian CLARK-LEWIS, Carmichael J. A. WALLACE

Biochem J (2001) 359 (3): 715–720.

https://doi.org/10.1042/bj3590715

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...

View article titled, Conserved tryptophan in cytochrome c: importance of the unique side-chain features of the indole moiety

Articles

Cloning and expression of a single-chain catalytic antibody that acts as a glutathione peroxidase mimic with high catalytic efficiency

Xiaojun REN, Shujuan GAO, Delin YOU, Hualiang HUANG, Zi LIU, Ying MU, Junqiu LIU, Yan ZHANG, Ganglin YAN, Guimin LUO, Tongshu YANG, Jiacong SHEN

Biochem J (2001) 359 (2): 369–374.

https://doi.org/10.1042/bj3590369

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...

View article titled, Cloning and expression of a single-chain catalytic antibody that acts as a glutathione peroxidase mimic with high catalytic efficiency

Articles

Functional and structural roles of the glutathione-binding residues in maize (Zea mays) glutathione S-transferase I

Nikolaos E. LABROU, Luciane V. MELLO, Yannis D. CLONIS

Biochem J (2001) 358 (1): 101–110.

https://doi.org/10.1042/bj3580101

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...

View article titled, Functional and structural roles of the glutathione-binding residues in maize (Zea mays) glutathione S-transferase I

Articles

Second generation antitumour human RNase: significance of its structural and functional features for the mechanism of antitumour action

Sonia Di GAETANO, Giuseppe D'ALESSIO, Renata PICCOLI

Biochem J (2001) 358 (1): 241–247.

https://doi.org/10.1042/bj3580241

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...

View article titled, Second generation antitumour human RNase: significance of its structural and functional features for the mechanism of antitumour action

Articles

Active-site characterization of Candida boidinii formate dehydrogenase

Nikolaos E. LABROU, Daniel J. RIGDEN

Biochem J (2001) 354 (2): 455–463.

https://doi.org/10.1042/bj3540455

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...

View article titled, Active-site characterization of Candida boidinii formate dehydrogenase

Articles

Probing the NADPH-binding site of Escherichia coli flavodoxin oxidoreductase

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

Biochem J (2000) 352 (2): 257–266.

https://doi.org/10.1042/bj3520257

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...

View article titled, Probing the NADPH-binding site of Escherichia coli flavodoxin oxidoreductase

Articles

The influence of secretory-protein charge on late stages of secretion from the Gram-positive bacterium Bacillus subtilis

Keith STEPHENSON, Christina L. JENSEN, Steen T. JØRGENSEN, Jeremy H. LAKEY, Colin R. HARWOOD

Biochem J (2000) 350 (1): 31–39.

https://doi.org/10.1042/bj3500031

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...

View article titled, The influence of secretory-protein charge on late stages of secretion from the Gram-positive bacterium Bacillus subtilis

Articles

Mechanistic studies of morphine dehydrogenase and stabilization against covalent inactivation

Edward H. WALKER, Christopher E. FRENCH, Deborah A. RATHBONE, Neil C. BRUCE

Biochem J (2000) 345 (3): 687–692.

https://doi.org/10.1042/bj3450687

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...

View article titled, Mechanistic studies of morphine dehydrogenase and stabilization against covalent inactivation

Articles

Inclusion of a furin-sensitive spacer enhances the cytotoxicity of ribotoxin restrictocin containing recombinant single-chain immunotoxins

Anita GOYAL, Janendra K. BATRA

Biochem J (2000) 345 (2): 247–254.

https://doi.org/10.1042/bj3450247

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...

View article titled, Inclusion of a furin-sensitive spacer enhances the cytotoxicity of ribotoxin restrictocin containing recombinant single-chain immunotoxins

Articles

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. SCHüTT, Mary B. SLABAUGH, Ricardo SCHUCH, Friedrich SPENER

Biochem J (2000) 345 (1): 153–160.

https://doi.org/10.1042/bj3450153

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...

View article titled, Reaction mechanism of recombinant 3-oxoacyl-(acyl-carrier-protein) synthase III from Cuphea wrightii embryo, a fatty acid synthase type II condensing enzyme

Articles

An aromatic, but not a basic, residue is involved in the toxicity of group-II phospholipase A2 neurotoxins

Jože PUNGERĆAR, Igor KRIAJ, Ning-Sheng LIANG, Franc GUBENŠEK

Biochem J (1999) 341 (1): 139–145.

https://doi.org/10.1042/bj3410139

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...

View article titled, An aromatic, but not a basic, residue is involved in the toxicity of group-II phospholipase A2 neurotoxins

Articles

Prediction and experimental testing of Bacillus acidocaldarius thioredoxin stability

Emilia PEDONE, Raffaele CANNIO, Michele SAVIANO, Mosè ROSSI, Simonetta BARTOLUCCI

Biochem J (1999) 339 (2): 309–317.

https://doi.org/10.1042/bj3390309

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...

View article titled, Prediction and experimental testing of Bacillus acidocaldarius thioredoxin stability

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