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Keywords: kinetics
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Biochem J (2025) 482 (09): 467–483.
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...
Includes: Supplementary data
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Biochem J (2020) 477 (8): 1443–1457.
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...
Includes: Supplementary data
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Biochem J (2019) 476 (19): 2677–2703.
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...
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Biochem J (2016) 473 (4): 411–421.
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...
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Biochem J (2016) 473 (4): 383–396.
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...
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Biochem J (2015) 472 (3): 329–338.
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...
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Biochem J (2015) 466 (2): 243–251.
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...
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Biochem J (2014) 463 (1): 135–144.
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...
Includes: Supplementary data
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Biochem J (2014) 462 (1): 143–152.
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...
Includes: Supplementary data
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Biochem J (2014) 460 (3): 447–457.
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...
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Biochem J (2014) 457 (1): 197–206.
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...
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Biochem J (2014) 457 (1): 137–149.
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...
Includes: Supplementary data
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Biochem J (2013) 453 (3): 337–344.
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...
Includes: Supplementary data
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Biochem J (2013) 453 (3): 427–434.
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...
Includes: Supplementary data
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Biochem J (2013) 449 (2): 491–496.
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...
Includes: Supplementary data
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Biochem J (2012) 446 (3): 499–508.
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...
Includes: Supplementary data
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Biochem J (2012) 445 (2): 219–228.
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...
Includes: Supplementary data
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Biochem J (2012) 443 (2): 505–514.
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...
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Biochem J (2011) 440 (2): 263–271.
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...
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Biochem J (2011) 439 (3): 423–434.
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...
Includes: Supplementary data
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Biochem J (2011) 435 (2): 411–420.
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...
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Biochem J (2010) 432 (3): 485–494.
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...
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Biochem J (2010) 429 (3): 527–532.
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...
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Biochem J (2010) 425 (2): 353–360.
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...
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Biochem J (2009) 422 (1): 111–117.
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...
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Biochem J (2009) 421 (1): 97–106.
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...
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Biochem J (2009) 419 (1): 221–230.
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...
Includes: Supplementary data
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Biochem J (2009) 418 (3): 605–614.
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...
Includes: Supplementary data
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Biochem J (2009) 417 (1): 355–360.
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...
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Biochem J (2008) 415 (2): 217–223.
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...
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Biochem J (2008) 413 (3): 369–387.
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...
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Biochem J (2008) 409 (3): 731–740.
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...
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Biochem J (2007) 402 (3): 439–447.
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...
Includes: Supplementary data
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Biochem J (2007) 402 (3): 503–513.
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...
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Biochem J (2007) 402 (2): 331–337.
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...
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Biochem J (2007) 401 (2): 485–495.
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...
Includes: Supplementary data
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Biochem J (2006) 400 (1): 13–22.
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...
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Biochem J (2006) 394 (1): 259–265.
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...
Includes: Supplementary data
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Biochem J (2005) 390 (3): 665–673.
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...
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Biochem J (2004) 377 (2): 309–316.
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...
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Biochem J (2003) 376 (3): 733–740.
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...
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Biochem J (2003) 374 (2): 529–535.
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...
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Biochem J (2003) 370 (1): 245–253.
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...