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Articles

The more we learn, the more diverse it gets: structures, functions and evolution in the Phosphofructokinase Superfamily

Jordan A. Compton, Wayne M. Patrick

Biochem J (2025) 482 (09): 467–483.

https://doi.org/10.1042/BCJ20253024

Published: 06 May 2025

... BY) . allosteric regulation enzyme evolution glycolysis kinetics phosphate donor specificity structural biology substrate specificity The enzyme 6-phosphofructokinase (PFK) was discovered almost 90 years ago in the laboratory overseen by Jakub Karol Parnas [ 1 ]. d -Fructose 1,6-bisphosphate (FBP...

View articletitled, The more we learn, the more diverse it gets: structures, functions and evolution in the Phosphofructokinase Superfamily

Includes: Supplementary data

Articles

Interaction of the neutral amino acid transporter ASCT2 with basic amino acids

Elias Ndaru, Rachel-Ann A. Garibsingh, Laura Zielewicz, Avner Schlessinger, Christof Grewer

Biochem J (2020) 477 (8): 1443–1457.

https://doi.org/10.1042/BCJ20190859

Published: 27 April 2020

..., glutamine, and alanine, which have a shorter hydrophobic side chain [ 1 , 7 , 9 , 10 ]. ASCT2 docking electrophysiology kinetics neutral amino acid transporter substrate selectivity © 2020 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2020...

View articletitled, Interaction of the neutral amino acid transporter ASCT2 with basic amino acids

Includes: Supplementary data

Articles

The growth of amyloid fibrils: rates and mechanisms

In Collection

Editors' pick of review article highlights published in the Biochemical Journal in 2018 & 2019

Alexander K. Buell

Biochem J (2019) 476 (19): 2677–2703.

https://doi.org/10.1042/BCJ20160868

Published: 11 October 2019

... kinetics and mechanisms. This work attempts to provide the most comprehensive summary, to date, of the available experimental data on amyloid fibril elongation rate constants and the temperature and concentration dependence of amyloid fibril elongation rates. These data are compared with those from other...

View articletitled, The growth of amyloid fibrils: rates and mechanisms

Articles

Purification and biochemical characterization of NpABCG5/NpPDR5, a plant pleiotropic drug resistance transporter expressed in Nicotiana tabacum BY-2 suspension cells

Frédéric Toussaint, Baptiste Pierman, Aurélie Bertin, Daniel Lévy, Marc Boutry

Biochem J (2017) 474 (10): 1689–1703.

https://doi.org/10.1042/BCJ20170108

Published: 04 May 2017

... of the Biochemical Society 2017 ABC transport proteins electron microscopy kinetics Nicotiana tabacum quaternary structure suspension cells ATP-binding cassette (ABC) transporters form a large family of proteins found in all organisms. They are involved in the active translocation of a wide...

View articletitled, Purification and biochemical characterization of NpABCG5/NpPDR5, a plant pleiotropic drug resistance transporter expressed in Nicotiana tabacum BY-2 suspension cells

Includes: Supplementary data

Articles

Kinetic analysis of structural influences on the susceptibility of peroxiredoxins 2 and 3 to hyperoxidation

Rebecca A. Poynton, Alexander V. Peskin, Alexina C. Haynes, W. Todd Lowther, Mark B. Hampton, Christine C. Winterbourn

Biochem J (2016) 473 (4): 411–421.

https://doi.org/10.1042/BJ20150572

Published: 09 February 2016

... Prx3 due to slower dimerization of the sulfenic acid (S p OH) intermediate. Four variant amino acids near the C-terminus have been shown to contribute to this difference. We have performed kinetic analysis of the relationship between hyperoxidation and disulfide formation, using whole-protein MS...

View articletitled, Kinetic analysis of structural influences on the susceptibility of peroxiredoxins 2 and 3 to hyperoxidation

Articles

Actin polymerization is stimulated by actin cross-linking protein palladin

Ritu Gurung, Rahul Yadav, Joseph G. Brungardt, Albina Orlova, Edward H. Egelman, Moriah R. Beck

Biochem J (2016) 473 (4): 383–396.

https://doi.org/10.1042/BJ20151050

Published: 09 February 2016

... enhancing filament stability and altering filament architecture. Palladin regulates a distinct actin nucleation mechanism that may underlie the assembly of actin in invasive cell motility. actin cross-linking kinetics nucleation polymerization Actin was purified from rabbit muscle acetone...

View articletitled, Actin polymerization is stimulated by actin cross-linking protein palladin

Articles

Nuclear protein kinase CLK1 uses a non-traditional docking mechanism to select physiological substrates

Malik M. Keshwani, Kendra L. Hailey, Brandon E. Aubol, Laurent Fattet, Maria L. McGlone, Patricia A. Jennings, Joseph A. Adams

Biochem J (2015) 472 (3): 329–338.

https://doi.org/10.1042/BJ20150903

Published: 27 November 2015

... CLK1 (Cdc (cell division cycle)2-like kinase 1) uses an oligomerization mechanism to recognize its physiological protein substrates. docking kinase kinetics oligomerization phosphorylation splicing Protein phosphorylation regulates countless cellular processes including...

View articletitled, Nuclear protein kinase CLK1 uses a non-traditional docking mechanism to select physiological substrates

Articles

Biochemical and functional characterization of a periplasmic disulfide oxidoreductase from Neisseria meningitidis essential for meningococcal viability

Adeline Gand, Laure Selme-Roussel, Sabrina Collin, Guy Branlant, Christophe Jacob, Sandrine Boschi-Muller

Biochem J (2015) 468 (2): 271–282.

https://doi.org/10.1042/BJ20140868

Published: 22 May 2015

... CXXC active site motif involved in disulfide exchange reaction. In the human pathogenic Neisseria meningitidis species, no TlpA has been characterized so far. In the present study, using an in silico analysis, we identified a putative periplasmic TlpA, called TlpA2. Biochemical and kinetic...

View articletitled, Biochemical and functional characterization of a periplasmic disulfide oxidoreductase from Neisseria meningitidis essential for meningococcal viability

Includes: Supplementary data

Articles

Kinetic characterization of a cocaine hydrolase engineered from mouse butyrylcholinesterase

Xiabin Chen, Xiaoqin Huang, Liyi Geng, Liu Xue, Shurong Hou, Xirong Zheng, Stephen Brimijoin, Fang Zheng, Chang-Guo Zhan

Biochem J (2015) 466 (2): 243–251.

https://doi.org/10.1042/BJ20141266

Published: 20 February 2015

.... According to the kinetic data, the catalytic efficiency ( k cat /K M ) of mBChE against (−)-cocaine is comparable with that of hBChE, but the catalytic efficiency of mCocH against (−)-cocaine is remarkably lower than that of hCocH by ~250-fold. The remarkable difference in the catalytic activity between...

View articletitled, Kinetic characterization of a cocaine hydrolase engineered from mouse butyrylcholinesterase

Articles

Kinetics of promoter escape by bacterial RNA polymerase: effects of promoter contacts and transcription bubble collapse

Je Ko, Tomasz Heyduk

Biochem J (2014) 463 (1): 135–144.

https://doi.org/10.1042/BJ20140179

Published: 08 September 2014

... of the escape. Perturbation of core promoter–polymerase contacts had opposing effects on the rates of melting and escape, demonstrating a direct role of core promoter elements sequence in setting not only the kinetics of promoter melting, but also the kinetics of promoter escape. The start of RNA synthesis...

View articletitled, Kinetics of promoter escape by bacterial RNA polymerase: effects of promoter contacts and transcription bubble collapse

Includes: Supplementary data

Articles

N-terminus of the protein kinase CLK1 induces SR protein hyperphosphorylation

Brandon E. Aubol, Ryan M. Plocinik, Malik M. Keshwani, Maria L. McGlone, Jonathan C. Hagopian, Gourisankar Ghosh, Xiang-Dong Fu, Joseph A. Adams

Biochem J (2014) 462 (1): 143–152.

https://doi.org/10.1042/BJ20140494

Published: 24 July 2014

... constant for the fixed substrate and [S] is the fixed substrate concentration. Cdc2-like kinase 1 (CLK1) docking kinase kinetics phosphorylation splicing As essential regulators of cell function, protein kinases phosphorylate select substrate targets on serine, threonine...

View articletitled, N-terminus of the protein kinase CLK1 induces SR protein hyperphosphorylation

Includes: Supplementary data

Articles

Kinetic characterization of human butyrylcholinesterase mutants for the hydrolysis of cocaethylene

Shurong Hou, Max Zhan, Xirong Zheng, Chang-Guo Zhan, Fang Zheng

Biochem J (2014) 460 (3): 447–457.

https://doi.org/10.1042/BJ20140360

Published: 29 May 2014

..., for the first time, in comparison with those for cocaine. On the basis of the obtained kinetic data, wild-type human BChE has a lower catalytic activity for cocaethylene ( k cat =3.3 min −1 , K M =7.5 μM and k cat / K M =4.40×10 5 M −1 ·min −1 ) compared with its catalytic activity for (−)-cocaine. E14-3...

View articletitled, Kinetic characterization of human butyrylcholinesterase mutants for the hydrolysis of cocaethylene

Articles

Kinetic characterization of high-activity mutants of human butyrylcholinesterase for the cocaine metabolite norcocaine

Max Zhan, Shurong Hou, Chang-Guo Zhan, Fang Zheng

Biochem J (2014) 457 (1): 197–206.

https://doi.org/10.1042/BJ20131100

Published: 10 December 2013

.... On the basis of the obtained kinetic data, wild-type human BChE has a significantly lower catalytic activity for norcocaine ( k cat =2.8 min −1 , K m =15 μM and k cat / K m =1.87×10 5 M −1 ·min −1 ) compared with its catalytic activity for (−)-cocaine. The BChE mutants examined in the present study have...

View articletitled, Kinetic characterization of high-activity mutants of human butyrylcholinesterase for the cocaine metabolite norcocaine

Articles

Extended interaction network of procollagen C-proteinase enhancer-1 in the extracellular matrix

Romain Salza, Franck Peysselon, Emilie Chautard, Clément Faye, Laura Moschcovich, Tali Weiss, Laure Perrin-Cocon, Vincent Lotteau, Efrat Kessler, Sylvie Ricard-Blum

Biochem J (2014) 457 (1): 137–149.

https://doi.org/10.1042/BJ20130295

Published: 10 December 2013

... and differentiation [ 8 ]. affinity extracellular matrix kinetics network protein–protein interaction surface plasmon resonance Full-length PCPE-1, the CUB1CUB2 fragment and the NTR domain were spotted on to Gold Affinity chips with 64 extracellular molecules as part of a screening process...

View articletitled, Extended interaction network of procollagen C-proteinase enhancer-1 in the extracellular matrix

Includes: Supplementary data

Articles

A highly efficient peptide substrate for EGFR activates the kinase by inducing aggregation

Kate Engel, Tomoaki Sasaki, Qi Wang, John Kuriyan

Biochem J (2013) 453 (3): 337–344.

https://doi.org/10.1042/BJ20130537

Published: 12 July 2013

... Biochemical Society 2013 activation aggregation dimer epidermal growth factor receptor (EGFR) fibril kinetics Samples of 1 mM Peptide C in water, 20 mM NaCl or assay buffer (15 mM Tris, pH 7.5, 0.02% polysorbate 20 and 20 mM NaCl) were analysed by DLS at 25°C using a DynaPro Titan (Wyatt...

View articletitled, A highly efficient peptide substrate for EGFR activates the kinase by inducing aggregation

Includes: Supplementary data

Articles

Molecular determinants of co- and post-translational N-glycosylation of type I transmembrane peptides

Heidi L. H. Malaby, William R. Kobertz

Biochem J (2013) 453 (3): 427–434.

https://doi.org/10.1042/BJ20130028

Published: 12 July 2013

...Heidi L. H. Malaby; William R. Kobertz Type I transmembrane peptides acquire N-linked glycans during and after protein synthesis to facilitate anterograde trafficking through the secretory pathway. Mutations in N-glycosylation consensus sites (NXT and NXS, where X≠P) that alter the kinetics...

View articletitled, Molecular determinants of co- and post-translational N-glycosylation of type I transmembrane peptides

Includes: Supplementary data

Articles

Investigations on the oxygen dependence of a 2-oxoglutarate histone demethylase

Elena M. Sánchez-Fernández, Hanna Tarhonskaya, Khalid Al-Qahtani, Richard J. Hopkinson, James S. O. McCullagh, Christopher J. Schofield, Emily Flashman

Biochem J (2013) 449 (2): 491–496.

https://doi.org/10.1042/BJ20121155

Published: 14 December 2012

... of the large Fe(II)/2-oxoglutarate- dependent family of human histone demethylases. In the present study we report kinetic studies on the reaction of KDM4E with O 2 . Steady-state assays showed that KDM4E has a graded response to O 2 over a physiologically relevant range of O 2 concentrations. Pre-steady state...

View articletitled, Investigations on the oxygen dependence of a 2-oxoglutarate histone demethylase

Includes: Supplementary data

Articles

Erythrocyte storage increases rates of NO and nitrite scavenging: implications for transfusion-related toxicity

Ryan Stapley, Benjamin Y. Owusu, Angela Brandon, Marianne Cusick, Cilina Rodriguez, Marisa B. Marques, Jeffrey D. Kerby, Scott R. Barnum, Jordan A. Weinberg, Jack R. Lancaster, Jr, Rakesh P. Patel

Biochem J (2012) 446 (3): 499–508.

https://doi.org/10.1042/BJ20120675

Published: 28 August 2012

.... In the present study we tested the hypothesis that storage of leucodepleted RBCs results in cells that inhibit NO (nitric oxide) signalling more so than younger cells. Using competition kinetic analyses and protocols that minimized contributions from haemolysis or microparticles, our data indicate...

View articletitled, Erythrocyte storage increases rates of NO and nitrite scavenging: implications for transfusion-related toxicity

Includes: Supplementary data

Articles

Characterization of an acetyltransferase that detoxifies aromatic chemicals in Legionella pneumophila

Xavier Kubiak, Delphine Dervins-Ravault, Benjamin Pluvinage, Alain F. Chaffotte, Laura Gomez-Valero, Julien Dairou, Florent Busi, Jean-Marie Dupret, Carmen Buchrieser, Fernando Rodrigues-Lima

Biochem J (2012) 445 (2): 219–228.

https://doi.org/10.1042/BJ20120528

Published: 27 June 2012

... -acetyltransferase detoxification enzyme variant kinetics Legionella pneumophila is an intracellular bacterium that is ubiquitous in aquatic environments, where it is part of multi-organismal biofilms. The environmental life cycle of L. pneumophila includes growth, survival and spreading within...

View articletitled, Characterization of an acetyltransferase that detoxifies aromatic chemicals in Legionella pneumophila

Includes: Supplementary data

Articles

Oxygen activation in neuronal NO synthase: resolving the consecutive mono-oxygenation steps

Davide Papale, Chiara Bruckmann, Ben Gazur, Caroline S. Miles, Christopher G. Mowat, Simon Daff

Biochem J (2012) 443 (2): 505–514.

https://doi.org/10.1042/BJ20111644

Published: 27 March 2012

... in the PBD under code 3FC5. 1 To whom correspondence should be addressed (email [email protected] ). 12 9 2011 17 1 2012 3 2 2012 3 2 2012 © The Authors Journal compilation © 2012 Biochemical Society 2012 electron transfer kinetics nitric oxide synthase (NOS...

View articletitled, Oxygen activation in neuronal NO synthase: resolving the consecutive mono-oxygenation steps

Includes: Supplementary data

Articles

Dissecting structure–function–stability relationships of a thermostable GH5-CBM3 cellulase from Bacillus subtilis 168

Camila R. Santos, Joice H. Paiva, Maurício L. Sforça, Jorge L. Neves, Rodrigo Z. Navarro, Júnio Cota, Patrícia K. Akao, Zaira B. Hoffmam, Andréia N. Meza, Juliana H. Smetana, Maria L. Nogueira, Igor Polikarpov, José Xavier-Neto, Fábio M. Squina, Richard J. Ward, Roberto Ruller, Ana C. Zeri, Mário T. Murakami

Biochem J (2012) 441 (1): 95–104.

https://doi.org/10.1042/BJ20110869

Published: 14 December 2011

... was demonstrated to have a hyper-stabilizing effect on BsCel5A, and by using deletion constructs and X-ray crystallography we determined that this effect maps to a negatively charged motif located at the opposite face of the catalytic site. accessory domain cellulase 5A carbohydrate-binding module kinetics...

View articletitled, Dissecting structure–function–stability relationships of a thermostable GH5-CBM3 cellulase from Bacillus subtilis 168

Includes: Supplementary data

Articles

A dynamic scaffolding mechanism for rhodopsin and transducin interaction in vertebrate vision

Daniele Dell'Orco, Karl-Wilhelm Koch

Biochem J (2011) 440 (2): 263–271.

https://doi.org/10.1042/BJ20110871

Published: 14 November 2011

... investigated the kinetics of interaction between native Rh and G t in different conditions by surface plasmon resonance and analysed the results in the general physiological context by employing a holistic systems modelling approach. The results from the present study point to a mechanism that is intermediate...

View articletitled, A dynamic scaffolding mechanism for rhodopsin and transducin interaction in vertebrate vision

Articles

Inhibition of the chlorinating activity of myeloperoxidase by tempol: revisiting the kinetics and mechanisms

Raphael F. Queiroz, Sandra M. Vaz, Ohara Augusto

Biochem J (2011) 439 (3): 423–434.

https://doi.org/10.1042/BJ20110555

Published: 13 October 2011

...-determined the kinetic constants of the reactions of tempol with MPO-I ( k =3.5×10 5 M −1 ·s −1 ) and MPO-II, the kinetics of which indicated a binding interaction ( K =2.0×10 −5 M; k =3.6×10 −2 s −1 ). Also, we showed that tempol reacts extremely slowly with hypochlorous acid ( k =0.29 and 0.054 M −1 ·s −1...

View articletitled, Inhibition of the chlorinating activity of myeloperoxidase by tempol: revisiting the kinetics and mechanisms

Includes: Supplementary data

Articles

Probing the S1 specificity pocket of the aminopeptidases that generate antigenic peptides

Efthalia Zervoudi, Athanasios Papakyriakou, Dimitra Georgiadou, Irini Evnouchidou, Anna Gajda, Marcin Poreba, Guy S. Salvesen, Marcin Drag, Akira Hattori, Luc Swevers, Dionisios Vourloumis, Efstratios Stratikos

Biochem J (2011) 435 (2): 411–420.

https://doi.org/10.1042/BJ20102049

Published: 29 March 2011

... 2011 aminopeptidase antigen kinetics peptide specificity site-directed mutagenesis substrate library © The Authors Journal compilation © 2011 Biochemical Society 2011 Cytotoxic T-lymphocytes identify infected or transformed cells by recognizing small antigenic peptides bound...

View articletitled, Probing the S1 specificity pocket of the aminopeptidases that generate antigenic peptides

Includes: Supplementary data

Articles

Kinetics of electron transfer between NADPH-cytochrome P450 reductase and cytochrome P450 3A4

Yassar Farooq, Gordon C. K. Roberts

Biochem J (2010) 432 (3): 485–494.

https://doi.org/10.1042/BJ20100744

Published: 25 November 2010

... 25 times through two polycarbonate membranes (0.1 μM pore size; Whatman) to obtain homogeneous LUVs (large unilamellar vesicles). artificial liposome cytochrome P450 cytochrome P450 3A4 (CYP3A4) electron transfer kinetics lateral diffusion reductase The SRS (simple reconstitution...

View articletitled, Kinetics of electron transfer between NADPH-cytochrome P450 reductase and cytochrome P450 3A4

Includes: Supplementary data

Articles

Identification of broad-based HIV-1 protease inhibitors from combinatorial libraries

Max W. Chang, Michael J. Giffin, Rolf Muller, Jeremiah Savage, Ying C. Lin, Sukwon Hong, Wei Jin, Landon R. Whitby, John H. Elder, Dale L. Boger, Bruce E. Torbett

Biochem J (2010) 429 (3): 527–532.

https://doi.org/10.1042/BJ20091645

Published: 14 July 2010

... correspondence should be addressed (email [email protected] ). 21 10 2009 8 5 2010 27 5 2010 27 5 2010 © The Authors Journal compilation © 2010 Biochemical Society 2010 anti-retroviral therapy high-diversity chemical library high-throughput screening HIV-1 kinetics non...

View articletitled, Identification of broad-based HIV-1 protease inhibitors from combinatorial libraries

Articles

The molecular basis of the effect of temperature on enzyme activity

Roy M. Daniel, Michelle E. Peterson, Michael J. Danson, Nicholas C. Price, Sharon M. Kelly, Colin R. Monk, Cristina S. Weinberg, Matthew L. Oudshoorn, Charles K. Lee

Biochem J (2010) 425 (2): 353–360.

https://doi.org/10.1042/BJ20091254

Published: 23 December 2009

... and reveals a new structurally localized and apparently universal mechanism for enzyme activity loss with increasing temperature, additional to denaturation. adaptation enzyme Equilibrium Model evolution kinetics temperature Saccharomyces cerevisiae α-glucosidase (E-SUCR; Megazyme...

View articletitled, The molecular basis of the effect of temperature on enzyme activity

Articles

Hypothiocyanous acid reactivity with low-molecular-mass and protein thiols: absolute rate constants and assessment of biological relevance

Ojia Skaff, David I. Pattison, Michael J. Davies

Biochem J (2009) 422 (1): 111–117.

https://doi.org/10.1042/BJ20090276

Published: 29 July 2009

.... Although it is established that HOSCN selectively targets thiols, absolute kinetic data for the reactions of thiols with HOSCN are absent from the literature. This study shows for the first time that the reactions of HOSCN with low-molecular-mass thiol residues occur with rate constants in the range from...

View articletitled, Hypothiocyanous acid reactivity with low-molecular-mass and protein thiols: absolute rate constants and assessment of biological relevance

Articles

Structure–activity analysis of aging and reactivation of human butyrylcholinesterase inhibited by analogues of tabun

Eugénie Carletti, Nadine Aurbek, Emilie Gillon, Mélanie Loiodice, Yvain Nicolet, Juan-Carlos Fontecilla-Camps, Patrick Masson, Horst Thiermann, Florian Nachon, Franz Worek

Biochem J (2009) 421 (1): 97–106.

https://doi.org/10.1042/BJ20090091

Published: 12 June 2009

... displays a peculiar resistance to oxime-mediated reactivation. We investigated the basis of oxime resistance of phosphoramidyl–BChE conjugates by determining the kinetics of inhibition, reactivation (obidoxime {1,1′-(oxybis-methylene) bis[4-(hydroxyimino) methyl] pyridinium dichloride}, TMB-4 [1,3...

View articletitled, Structure–activity analysis of aging and reactivation of human butyrylcholinesterase inhibited by analogues of tabun

Articles

Single-Myb-histone proteins from Arabidopsis thaliana : a quantitative study of telomere-binding specificity and kinetics

Ctirad Hofr, Pavla Šultesová, Michal Zimmermann, Iva Mozgová, Petra Procházková Schrumpfová, Michaela Wimmerová, Jiří Fajkus

Biochem J (2009) 419 (1): 221–230.

https://doi.org/10.1042/BJ20082195

Published: 13 March 2009

... quantitative DNA-binding study of this plant-specific family of proteins. Interactions of full-length proteins AtTRB1 and AtTRB3 with telomeric DNA were analysed by electrophoretic mobility-shift assay, fluorescence anisotropy and surface plasmon resonance to reveal their binding stoichiometry and kinetics...

View articletitled, Single-Myb-histone proteins from Arabidopsis thaliana : a quantitative study of telomere-binding specificity and kinetics

Includes: Supplementary data

Articles

Thermodynamic insights into the structural basis governing the donor substrate recognition by human β1,4-galactosyltransferase 7

Franck Daligault, Sophie Rahuel-Clermont, Sandrine Gulberti, Manh-Thong Cung, Guy Branlant, Patrick Netter, Jacques Magdalou, Virginie Lattard

Biochem J (2009) 418 (3): 605–614.

https://doi.org/10.1042/BJ20081093

Published: 25 February 2009

...-GalT) glycosaminoglycan (GAG) isothermal titration calorimetry (ITC) kinetics substrate recognition substrate specificity Human β1,4-GalT (galactosyltransferase)7 (EC 2.4.1.133, family GT7 in CAZy database, http://www.cazy.org ) is a Golgi-resident type II membrane protein that catalyses...

View articletitled, Thermodynamic insights into the structural basis governing the donor substrate recognition by human β1,4-galactosyltransferase 7

Includes: Supplementary data

Articles

The catalytic role of INCENP in Aurora B activation and the kinetic mechanism of Aurora B/INCENP

Jingsong Yang, Francesca Zappacosta, Roland S. Annan, Kelvin Nurse, Peter J. Tummino, Robert A. Copeland, Zhihong Lai

Biochem J (2009) 417 (1): 355–360.

https://doi.org/10.1042/BJ20081365

Published: 12 December 2008

... of INCENP on the activation kinetics of AurB and also elucidated the kinetic mechanism of AurB-catalysed substrate phosphorylation. We have concluded that: (i) substoichoimetric concentrations of INCENP are sufficient for AurB autophosphorylation at the activation loop residue Thr 232 , and hence INCENP...

View articletitled, The catalytic role of INCENP in Aurora B activation and the kinetic mechanism of Aurora B/INCENP

Articles

Structural and kinetic differences between human and Aspergillus fumigatusD-glucosamine-6-phosphate N-acetyltransferase

Ramon Hurtado-Guerrero, Olawale G. Raimi, Jinrong Min, Hong Zeng, Laura Vallius, Sharon Shepherd, Adel F. M. Ibrahim, Hong Wu, Alexander N. Plotnikov, Daan M. F. van Aalten

Biochem J (2008) 415 (2): 217–223.

https://doi.org/10.1042/BJ20081000

Published: 25 September 2008

... structures of both human and A. fumigatus GNA1, as well as their kinetic characterization. The structures show significant differences in the sugar-binding site with, in particular, several non-conservative substitutions near the phosphate-binding pocket. Mutagenesis targeting these differences revealed...

View articletitled, Structural and kinetic differences between human and Aspergillus fumigatusD-glucosamine-6-phosphate N-acetyltransferase

Articles

Structure, mechanism and regulation of pyruvate carboxylase

Sarawut Jitrapakdee, Martin St Maurice, Ivan Rayment, W. Wallace Cleland, John C. Wallace, Paul V. Attwood

Biochem J (2008) 413 (3): 369–387.

https://doi.org/10.1042/BJ20080709

Published: 15 July 2008

... kinetics metabolism pyruvate carboxylase structure PC (pyruvate carboxylase; EC 6.4.1.1) was discovered by Utter and Keech [ 1 ] in the course of studies on the intracellular distribution of enzymes involved in the dicarboxylic acid shuttle and its relationship to gluconeogenesis in chicken...

View articletitled, Structure, mechanism and regulation of pyruvate carboxylase

Articles

Ctr2 is partially localized to the plasma membrane and stimulates copper uptake in COS-7 cells

Jesse Bertinato, Eleonora Swist, Louise J. Plouffe, Stephen P. J. Brooks, Mary R. L'Abbé

Biochem J (2008) 409 (3): 731–740.

https://doi.org/10.1042/BJ20071025

Published: 15 January 2008

... by promoting uptake at the cell surface. Kinetic analyses showed that hCtr2–GFP stimulated saturable copper uptake with a K m of 11.0±2.5 μM and a K 0.5 of 6.9±0.7 μM when data were fitted to a rectangular hyperbola or Hill equation respectively. Competition experiments revealed that silver completely...

View articletitled, Ctr2 is partially localized to the plasma membrane and stimulates copper uptake in COS-7 cells

Articles

Kinetic analysis of GTP hydrolysis catalysed by the Arf1-GTP–ASAP1 complex

Ruibai Luo, Bijan Ahvazi, Diana Amariei, Deborah Shroder, Beatriz Burrola, Wolfgang Losert, Paul A. Randazzo

Biochem J (2007) 402 (3): 439–447.

https://doi.org/10.1042/BJ20061217

Published: 26 February 2007

... to function as Arf effectors and oncogenes. We have set out to characterize the kinetics of the GAP-induced GTP hydrolysis using a truncated form of ASAP1 [Arf GAP with SH3 (Src homology 3) domain, ankyrin repeats and PH (pleckstrin homology) domains 1] as a model. We found that ASAP1 used Arf1-GTP...

View articletitled, Kinetic analysis of GTP hydrolysis catalysed by the Arf1-GTP–ASAP1 complex

Includes: Supplementary data

Articles

Modulation of the proteolytic activity of matrix metalloproteinase-2 (gelatinase A) on fibrinogen

Susanna Monaco, Magda Gioia, Janet Rodriguez, Giovanni Francesco Fasciglione, Donato Di Pierro, Giulio Lupidi, Ludwig Krippahl, Stefano Marini, Massimo Coletta

Biochem J (2007) 402 (3): 503–513.

https://doi.org/10.1042/BJ20061064

Published: 26 February 2007

... under reducing conditions. For α- and β-chains the substrate disappearance rates were derived at each fibrinogen concentration employed. For substrate fragmentation kinetics, activated whole MMP-2 or plasmin were added to fibrinogen solutions at a final concentration of 10 pM, whereas...

View articletitled, Modulation of the proteolytic activity of matrix metalloproteinase-2 (gelatinase A) on fibrinogen

Articles

The dependence of enzyme activity on temperature: determination and validation of parameters

Michelle E. Peterson, Roy M. Daniel, Michael J. Danson, Robert Eisenthal

Biochem J (2007) 402 (2): 331–337.

https://doi.org/10.1042/BJ20061143

Published: 12 February 2007

... irreversible thermal inactivation to the thermally denatured state (X): enzyme activity Equilibrium Model kinetics stability thermal-dependence The Biochemical Society, London 2007 27 7 2006 30 10 2006 3 11 2006 3 11 2006 1 To whom correspondence should...

View articletitled, The dependence of enzyme activity on temperature: determination and validation of parameters

Articles

Kinetic diversity in G-protein-coupled receptor signalling

Vladimir L. Katanaev, Matey Chornomorets

Biochem J (2007) 401 (2): 485–495.

https://doi.org/10.1042/BJ20060517

Published: 21 December 2006

... illustrate a simple kinetic model of G-protein signalling. This model shows that stable production of significant amounts of free Gα GTP (GTP-bound Gα subunit) and βγ is only one of multiple modes of behaviour of the G-protein system upon activation. Other modes, previously uncharacterized, are sustained...

View articletitled, Kinetic diversity in G-protein-coupled receptor signalling

Includes: Supplementary data

Articles

Structural and kinetic analyses of the H121A mutant of cholesterol oxidase

Louis Lim, Gianluca Molla, Nicole Guinn, Sandro Ghisla, Loredano Pollegioni, Alice Vrielink

Biochem J (2006) 400 (1): 13–22.

https://doi.org/10.1042/BJ20060664

Published: 27 October 2006

...) Journal of Biological Chemistry 276 , 18024–18030]. A detailed kinetic analysis of the H121A mutant enzyme shows that the decrease in turnover number is largely due to a corresponding decrease in the rate constant of flavin reduction, whilst the re-oxidation reaction is only marginally altered...

View articletitled, Structural and kinetic analyses of the H121A mutant of cholesterol oxidase

Articles

Oxidation and haem loss kinetics of poly(ethylene glycol)-conjugated haemoglobin (MP4): dissociation between in vitro and in vivo oxidation rates

Kim D. Vandegriff, Ashok Malavalli, Charles Minn, Eva Jiang, Jeff Lohman, Mark A. Young, Michele Samaja, Robert M. Winslow

Biochem J (2006) 399 (3): 463–471.

https://doi.org/10.1042/BJ20060809

Published: 13 October 2006

... . 1 To whom correspondence should be addressed (email [email protected] ). 31 5 2006 29 6 2006 3 7 2006 3 7 2006 The Biochemical Society, London 2006 autoxidation haem dissociation kinetics poly-(ethylene glycol) (PEG) PEGylated haemoglobin...

View articletitled, Oxidation and haem loss kinetics of poly(ethylene glycol)-conjugated haemoglobin (MP4): dissociation between in vitro and in vivo oxidation rates

Articles

Characterization of yeast pyruvate kinase 1 as a protein kinase A substrate, and specificity of the phosphorylation site sequence in the whole protein

Paula Portela, Silvia Moreno, Silvia Rossi

Biochem J (2006) 396 (1): 117–126.

https://doi.org/10.1042/BJ20051642

Published: 26 April 2006

..., London 2006 phosphorylation protein kinase A (PKA) pyruvate kinase 1 (Pyk1) substrate specificity yeast kinetics The intracellular transduction of signals from the plasma membrane to cellular compartments evokes a variety of physiological responses. Protein phosphorylation is one...

View articletitled, Characterization of yeast pyruvate kinase 1 as a protein kinase A substrate, and specificity of the phosphorylation site sequence in the whole protein

Articles

Coupling of protein motions and hydrogen transfer during catalysis by Escherichia coli dihydrofolate reductase

Richard S. Swanwick, Giovanni Maglia, Lai-hock Tey, Rudolf K. Allemann

Biochem J (2006) 394 (1): 259–265.

https://doi.org/10.1042/BJ20051464

Published: 27 January 2006

... through the measurement of the temperature dependence of the reaction rates and the kinetic isotope effects. Single turnover experiments at pH 7.0 revealed a strong dependence of the reaction rates on temperature. The observed relatively large difference in the activation energies for hydrogen...

View articletitled, Coupling of protein motions and hydrogen transfer during catalysis by Escherichia coli dihydrofolate reductase

Includes: Supplementary data

Articles

Characterization of a novel, cytokine-inducible carboxypeptidase D isoform in haematopoietic tumour cells

Padraic G. P. O'Malley, Shirley M. Sangster, Salma A. Abdelmagid, Stephen L. Bearne, Catherine K. L. Too

Biochem J (2005) 390 (3): 665–673.

https://doi.org/10.1042/BJ20050025

Published: 05 September 2005

...-inducible haematopoietic tumour cell kinetics nuclear enzyme prolactin The rat genome database [NCBI (National Center for Biotechnology Information)] was used to analyse the rat CPD and CPD-N cDNAs. Our analysis showed that 750 bases specific to the 5′-end of CPD cDNA were lost in the CPD-N cDNA...

View articletitled, Characterization of a novel, cytokine-inducible carboxypeptidase D isoform in haematopoietic tumour cells

Articles

Kinetic investigation of human dipeptidyl peptidase II (DPPII)-mediated hydrolysis of dipeptide derivatives and its identification as quiescent cell proline dipeptidase (QPP)/dipeptidyl peptidase 7 (DPP7)

Marie-Berthe MAES, Anne-Marie LAMBEIR, Kambiz GILANY, Kristel SENTEN, Pieter VAN der VEKEN, Barbara LEITING, Koen AUGUSTYNS, Simon SCHARPÉ, Ingrid DE MEESTER

Biochem J (2005) 386 (2): 315–324.

https://doi.org/10.1042/BJ20041156

Published: 22 February 2005

... molecular and catalytic characterization, including substrate selectivity, kinetics and pH-dependence, has not been conducted. In the present study, DPPII was purified from human seminal plasma to apparent homogeneity with a high yield (40%) purification scheme, including an inhibitor-based affinity...

View articletitled, Kinetic investigation of human dipeptidyl peptidase II (DPPII)-mediated hydrolysis of dipeptide derivatives and its identification as quiescent cell proline dipeptidase (QPP)/dipeptidyl peptidase 7 (DPP7)

Articles

Influence of a mutation in the ATP-binding region of Ca2+/calmodulin-dependent protein kinase II on its interaction with peptide substrates

Mullasseril PRASEEDA, Kurup K. PRADEEP, Ananth KRUPA, S. Sri KRISHNA, Suseela LEENA, R. Rajeev KUMAR, John CHERIYAN, Madhavan MAYADEVI, Narayanaswamy SRINIVASAN, Ramakrishnapillai V. OMKUMAR

Biochem J (2004) 378 (2): 391–397.

https://doi.org/10.1042/bj20030741

Published: 01 March 2004

.... Key words: Ca2+/calmodulin-dependent protein kinase II (CaMKII), kinetics, N-methyl-D-aspartate receptor subunit 2B (NR2B), molecular modelling, phosphorylation, synapse. INTRODUCTION CaMKII (Ca2+/calmodulin-dependent protein kinase II) is a serine/threonine protein kinase involved in long-term...

View articletitled, Influence of a mutation in the ATP-binding region of Ca2+/calmodulin-dependent protein kinase II on its interaction with peptide substrates

Articles

Investigation of metal binding and activation of Escherichia coli glyoxalase I: kinetic, thermodynamic and mutagenesis studies

Susan L. CLUGSTON, Rieko YAJIMA, John F. HONEK

Biochem J (2004) 377 (2): 309–316.

https://doi.org/10.1042/bj20030271

Published: 15 January 2004

... in E. coli GlxI, several approaches were undertaken. Kinetic studies indicate that the catalytic metal ion affects the k cat without significantly affecting the K m for the substrate. Inductively coupled plasma analysis and isothermal titration calorimetry confirmed one metal ion bound to the enzyme...

View articletitled, Investigation of metal binding and activation of Escherichia coli glyoxalase I: kinetic, thermodynamic and mutagenesis studies

Articles

Protease-activated receptor-4 uses dual prolines and an anionic retention motif for thrombin recognition and cleavage

Suzanne L. JACQUES, Athan KULIOPULOS

Biochem J (2003) 376 (3): 733–740.

https://doi.org/10.1042/bj20030954

Published: 15 December 2003

...Suzanne L. JACQUES; Athan KULIOPULOS Thrombin activation of human platelets is mediated by the high-affinity PAR1 (protease-activated receptor-1) and the low-affinity PAR4 receptor. PAR1 and PAR4 exhibit markedly disparate kinetics of activation that likely reflect differences in the macromolecular...

View articletitled, Protease-activated receptor-4 uses dual prolines and an anionic retention motif for thrombin recognition and cleavage

Articles

Hydride transfer during catalysis by dihydrofolate reductase from Thermotoga maritima

Giovanni MAGLIA, Masood H. JAVED, Rudolf K. ALLEMANN

Biochem J (2003) 374 (2): 529–535.

https://doi.org/10.1042/bj20030412

Published: 01 September 2003

... temperature of DHFR from E. coli . The turnover and the hydride-transfer rates in the kinetic scheme of TmDHFR were derived from measurements of the steady-state and pre-steady-state kinetics using absorbance and stopped-flow fluorescence spectroscopy. The rate constant for hydride transfer was found...

View articletitled, Hydride transfer during catalysis by dihydrofolate reductase from Thermotoga maritima

Articles

Structure and function of the globin and globin gene from the Antarctic mollusc Yoldia eightsi

Sylvia DEWILDE, Elisa ANGELINI, Laurent KIGER, Michael C. MARDEN, Mariano BELTRAMINI, Benedetto SALVATO, Luc MOENS

Biochem J (2003) 370 (1): 245–253.

https://doi.org/10.1042/bj20020727

Published: 15 February 2003

... hydrogen bond, leading to a higher oxygen-dissociation rate. However, Yoldia haemoglobin has the usual distal and proximal histidines, so the primary structure alone does not provide an obvious explanation for the low affinity. The CO-binding kinetics are biphasic, with the fraction of slow phase...

View articletitled, Structure and function of the globin and globin gene from the Antarctic mollusc Yoldia eightsi

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