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Keywords: circular dichroism
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Articles

α-Helix stabilization by co-operative side chain charge-reinforced interactions to phosphoserine in a basic kinase-substrate motif

Matthew Batchelor, Robert S. Dawber, Andrew J. Wilson, Richard Bayliss
Journal: Biochemical Journal
Biochem J (2022) 479 (5): 687–700.
https://doi.org/10.1042/BCJ20210812
Published: 16 March 2022
.... However, it was unclear whether and how phosphorylation could stabilize a helix in a broader context. In the current manuscript, we address this challenge using poly-Ala-based model peptides and a suite of circular dichroism and nuclear magnetic resonance spectroscopies. We show that phosphorylation...
View article titled, α-Helix stabilization by co-operative side chain charge-reinforced interactions to phosphoserine in a basic kinase-substrate motif
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Includes: Supplementary data
Articles

Excitation energy transfer kinetics of trimeric, monomeric and subunit-depleted Photosystem I from Synechocystis PCC 6803

Parveen Akhtar, Avratanu Biswas, László Kovács, Nathan Nelson, Petar H. Lambrev
Journal: Biochemical Journal
Biochem J (2021) 478 (7): 1333–1346.
https://doi.org/10.1042/BCJ20210021
Published: 06 April 2021
... 3 3 2021 9 3 2021 9 3 2021 © 2021 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2021 circular dichroism cyanobacteria fluorescence resonance energy transfer photosynthesis time-resolved spectroscopy Photosystem I (PSI...
View article titled, Excitation energy transfer kinetics of trimeric, monomeric and subunit-depleted Photosystem I from Synechocystis PCC 6803
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Includes: Supplementary data
Articles

Macroorganisation and flexibility of thylakoid membranes

In Collection
Photosynthesis
Petar H. Lambrev, Parveen Akhtar
Journal: Biochemical Journal
Biochem J (2019) 476 (20): 2981–3018.
https://doi.org/10.1042/BCJ20190080
Published: 28 October 2019
...–protein assemblies, aka macroorganisation, and its dynamic responses to the fluctuating physiological environment, aka flexibility, are the subject of this review. An emphasis is given on the information obtainable by spectroscopic approaches, especially circular dichroism (CD). We briefly summarise...
View article titled, Macroorganisation and flexibility of thylakoid membranes
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Articles

Caspase-9 CARD : core domain interactions require a properly formed active site

Kristen L. Huber, Banyuhay P. Serrano, Jeanne A. Hardy
Journal: Biochemical Journal
Biochem J (2018) 475 (6): 1177–1196.
https://doi.org/10.1042/BCJ20170913
Published: 29 March 2018
... 2 2018 1 3 2018 2 3 2018 © 2018 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2018 apoptosis CARD caspase-9 circular dichroism interdomain interactions protein conformation Apoptosis or programmed cell death...
View article titled, Caspase-9 CARD : core domain interactions require a properly formed active site
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Includes: Supplementary data
Articles

Spectroscopic and calorimetric characterization of spermine oxidase and its association forms

Alessia Leonetti, Laura Cervoni, Fabio Polticelli, Yuta Kanamori, Zuleyha Nihan Yurtsever, Enzo Agostinelli, Paolo Mariottini, Pasquale Stano, Manuela Cervelli
Journal: Biochemical Journal
Biochem J (2017) 474 (24): 4253–4268.
https://doi.org/10.1042/BCJ20170744
Published: 14 December 2017
... spectroscopic methods (circular dichroism, fluorescence) and thermal methods (differential scanning calorimetry), we provide new insights into the structure, the transformation, and the stability of SMOX. While the crystal structure of this protein is not available yet, experimental results are interpreted also...
View article titled, Spectroscopic and calorimetric characterization of spermine oxidase and its association forms
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Articles

Intrinsic disorder in the partitioning protein KorB persists after co-operative complex formation with operator DNA and KorA

Eva I. Hyde, Philip Callow, Karthik V. Rajasekar, Peter Timmins, Trushar R. Patel, Giuliano Siligardi, Rohanah Hussain, Scott A. White, Christopher M. Thomas, David J. Scott
Journal: Biochemical Journal
Biochem J (2017) 474 (18): 3121–3135.
https://doi.org/10.1042/BCJ20170281
Published: 31 August 2017
...-operatively with other proteins, including the repressor KorA. Like many multifunctional proteins, KorB contains regions of intrinsically disordered structure, existing in a large ensemble of interconverting conformations. Using NMR spectroscopy, circular dichroism and small-angle neutron scattering, we...
View article titled, Intrinsic disorder in the partitioning protein KorB persists after co-operative complex formation with operator DNA and KorA
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Includes: Supplementary data
Articles

Catecholaminergic polymorphic ventricular tachycardia-related mutations R33Q and L167H alter calcium sensitivity of human cardiac calsequestrin

Giorgia Valle, Daniela Galla, Alessandra Nori, Silvia G. Priori, Sandor Gyorke, Vincenzo de Filippis, Pompeo Volpe
Journal: Biochemical Journal
Biochem J (2008) 413 (2): 291–303.
https://doi.org/10.1042/BJ20080163
Published: 26 June 2008
... interactions. Initial molecular events of CPVT pathogenesis begin to unveil and appear to be different depending upon the specific CASQ2 mutation. calcium binding calsequestrin circular dichroism fluorescence protein stability proteolysis where θ obs is the observed ellipticity...
View article titled, Catecholaminergic polymorphic ventricular tachycardia-related mutations R33Q and L167H alter calcium sensitivity of human cardiac calsequestrin
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Articles

Cholesterol binding is a prerequisite for the activity of the steroidogenic acute regulatory protein (StAR)

Alireza Roostaee, Élie Barbar, Jean-Guy LeHoux, Pierre Lavigne
Journal: Biochemical Journal
Biochem J (2008) 412 (3): 553–562.
https://doi.org/10.1042/BJ20071264
Published: 28 May 2008
... constant and equal to 1 kcal·mol −1 ·K −1 (1 kcal≈4.184 kJ). Statistical analysis was performed by ANOVA and P values less than 0.05 were considered significant. cholesterol circular dichroism mitochondria steroidogenesis steroidogenic acute regulatory protein (StAR) thermodynamics...
View article titled, Cholesterol binding is a prerequisite for the activity of the steroidogenic acute regulatory protein (StAR)
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Includes: Supplementary data
Articles

Role of Ser 11 in the stabilization of the structure of Ochrobactrum anthropi glutathione transferase

Luca Federici, Michele Masulli, Daniele Bonivento, Adele Di Matteo, Stefano Gianni, Bartolo Favaloro, Carmine Di Ilio, Nerino Allocati
Journal: Biochemical Journal
Biochem J (2007) 403 (2): 267–274.
https://doi.org/10.1042/BJ20061707
Published: 26 March 2007
... upon unfolding. In the analysis, the S11A enzyme data were excluded at a temperature of 328 K, because at this temperature the protein grossly precipitates. bacterial glutathione transferase (bacterial GST) circular dichroism crystallography G-site Ochrobactrum anthropi unfolding...
View article titled, Role of Ser 11 in the stabilization of the structure of Ochrobactrum anthropi glutathione transferase
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Articles

Inhibition of a metal-dependent viral RNA triphosphatase by decavanadate

Isabelle Bougie, Martin Bisaillon
Journal: Biochemical Journal
Biochem J (2006) 398 (3): 557–567.
https://doi.org/10.1042/BJ20060198
Published: 29 August 2006
... molar excess relative to [enzyme] tot , then it can be assumed that [ligand] is approximately equal to [ligand] tot . Eqns (1) and (2) can then be combined to give eqn (3) : (3) chlorella virus circular dichroism denaturation studies enzymology fluorescence spectroscopy...
View article titled, Inhibition of a metal-dependent viral RNA triphosphatase by decavanadate
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Articles

Mapping and conformational characterization of the DNA-binding region of the breast cancer susceptibility protein BRCA1

Riffat Naseem, Alice Sturdy, David Finch, Thomas Jowitt, Michelle Webb
Journal: Biochemical Journal
Biochem J (2006) 395 (3): 529–535.
https://doi.org/10.1042/BJ20051646
Published: 11 April 2006
... centrifugation. 1 To whom correspondence should be addressed (email [email protected] ). 10 10 2005 19 1 2006 7 2 2006 7 2 2006 The Biochemical Society, London 2006 breast cancer breast cancer susceptibility protein 1 (BRCA1) circular dichroism DNA...
View article titled, Mapping and conformational characterization of the DNA-binding region of the breast cancer susceptibility protein BRCA1
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Articles

Structural and functional studies of vertebrate metallothioneins: cross-talk between domains in the absence of physical contact

Clemente Capasso, Vincenzo Carginale, Orlando Crescenzi, Daniela Di Maro, Roberta Spadaccini, Piero Andrea Temussi, Elio Parisi
Journal: Biochemical Journal
Biochem J (2005) 391 (1): 95–103.
https://doi.org/10.1042/BJ20050335
Published: 26 September 2005
... spectra and CD spectroscopy of samples of recombinant α- and β-domains were performed as described previously [ 23 ]. The protein concentration was 0.03 mg/ml for absorbance spectroscopy and 0.1 mg/ml for CD. circular dichroism metallothionein metal mobility NMR thiol reactivity Zinc...
View article titled, Structural and functional studies of vertebrate metallothioneins: cross-talk between domains in the absence of physical contact
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Articles

A novel assay method for an amino acid racemase reaction based on circular dichroism

Masafumi Noda, Yasuyuki Matoba, Takanori Kumagai, Masanori Sugiyama
Journal: Biochemical Journal
Biochem J (2005) 389 (2): 491–496.
https://doi.org/10.1042/BJ20041649
Published: 05 July 2005
...Masafumi Noda; Yasuyuki Matoba; Takanori Kumagai; Masanori Sugiyama We have established a novel assay method based on circular dichroism that can be used for the kinetic study of the activity of amino acid racemases, such as ALR (alanine racemase). Although an enzyme-coupled assay method has been...
View article titled, A novel assay method for an amino acid racemase reaction based on <span class="search-highlight">circular</span> <span class="search-highlight">dichroism</span>
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Articles

TraA and its N-terminal relaxase domain of the Gram-positive plasmid pIP501 show specific oriT binding and behave as dimers in solution

Jolanta KOPEC, Alexander BERGMANN, Gerhard FRITZ, Elisabeth GROHMANN, Walter KELLER
Journal: Biochemical Journal
Biochem J (2005) 387 (2): 401–409.
https://doi.org/10.1042/BJ20041178
Published: 05 April 2005
... of secondary structure of proteins from UV circular dichroism using an unsupervised learning neural network Protein Eng. 1993 6 383 390 12 Combet C. Blanchet C. Geourjon C. Deléage G. NPS@: network protein sequence analysis Trends Biochem. Sci. 2000 291 147 150 13...
View article titled, TraA and its N-terminal relaxase domain of the Gram-positive plasmid pIP501 show specific oriT binding and behave as dimers in solution
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Includes: Supplementary data
Articles

Glutamic acid-65 is an essential residue for catalysis in Proteus mirabilis glutathione S-transferase B1-1

Nerino ALLOCATI, Michele MASULLI, Enrico CASALONE, Silvia SANTUCCI, Bartolo FAVALORO, Michael W. PARKER, Carmine DI ILIO
Journal: Biochemical Journal
Biochem J (2002) 363 (1): 189–193.
https://doi.org/10.1042/bj3630189
Published: 22 March 2002
... correspondence should be addressed (e-mail [email protected] ). 24 10 2001 12 12 2001 28 1 2002 The Biochemical Society, London ©2002 2002 circular dichroism GST site-directed mutagenesis Abbreviations used: CDNB, 1-chloro-2,4-dinitrobenzene; GST, glutathione S...
View article titled, Glutamic acid-65 is an essential residue for catalysis in Proteus mirabilis glutathione S-transferase B1-1
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Articles

Evolution of maurotoxin conformation and blocking efficacy towards Shaker B channels during the course of folding and oxidation in vitro

Eric DI LUCCIO, Alessandra MATAVEL, Sandrine OPI, Imed REGAYA, Guillaume SANDOZ, Sarrah M'BAREK, Edmond CARLIER, Eric ESTÈVE, Louis CARREGA, Ziad FAJLOUN, Hervé ROCHAT, Erwann LORET, Michel DE WAARD, Jean-Marc SABATIER
Journal: Biochemical Journal
Biochem J (2002) 361 (2): 409–416.
https://doi.org/10.1042/bj3610409
Published: 08 January 2002
... ©2002 2002 circular dichroism half-cystine pairing K + channel mass spectrometry scorpion toxin Abbreviations used: Abu, α-aminobutyrate; Fmoc, N α -fluorenyl-9-methyloxycarbonyl; MALDI-TOF, matrix-assisted laser desorption ionization—time of flight; MTX, maurotoxin; sMTX...
View article titled, Evolution of maurotoxin conformation and blocking efficacy towards Shaker B channels during the course of folding and oxidation in vitro
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Articles

Hormone-triggered conformational changes within the insulin-receptor ectodomain: requirement for transmembrane anchors

Ralf-Rudiger FLÖRKE, Kerstin SCHNAITH, Waltraud PASSLACK, Marc WICHERT, Lothar KUEHN, Marlies FABRY, Matthias FEDERWISCH, Hans REINAUER
Journal: Biochemical Journal
Biochem J (2001) 360 (1): 189–198.
https://doi.org/10.1042/bj3600189
Published: 08 November 2001
... on the receptor ecto- domain. Key words: circular dichroism, fluorescence spectroscopy, hydro- dynamic properties, non-denaturing electrophoresis, Triton X-114. reviewed in [5,10,11 It has become an accepted concept that one function of the extracellular receptor portions is to keep the catalytic loop of one...
View article titled, Hormone-triggered conformational changes within the insulin-receptor ectodomain: requirement for transmembrane anchors
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Articles

Structural characterization and thermal stability of Notothenia coriiceps metallothionein

Sabato D'AURIA, Vincenzo CARGINALE, Rosaria SCUDIERO, Orlando CRESCENZI, Daniela DI MARO, Piero Andrea TEMUSSI, Elio PARISI, Clemente CAPASSO
Journal: Biochemical Journal
Biochem J (2001) 354 (2): 291–299.
https://doi.org/10.1042/bj3540291
Published: 22 February 2001
... spectroscopy circular dichroism NMR temperature effect zinc mobility Biochem. J. (2001) 354, 291 299 (Printed in Great Britain) 291 Structural characterization and thermal stability of Notothenia coriiceps metallothionein1 Sabato D AURIA*2, Vincenzo CARGINALE*, Rosaria SCUDIERO‹, Orlando CRESCENZI...
View article titled, Structural characterization and thermal stability of Notothenia coriiceps metallothionein
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Articles

Studies on a single immunoglobulin-binding domain of protein L from Peptostreptococcus magnus: the role of tyrosine-53 in the reaction with human IgG

Jennifer A. BECKINGHAM, Nicholas G. HOUSDEN, Nicola M. MUIR, Stephen P. BOTTOMLEY, Michael G. GORE
Journal: Biochemical Journal
Biochem J (2001) 353 (2): 395–401.
https://doi.org/10.1042/bj3530395
Published: 08 January 2001
... that the phenol group of Tyr 53 in PpL is important to the stability of the PpLŐκ-chain complex. 1 To whom correspondence should be addressed (e-mail [email protected] ). 4 7 2000 2 10 2000 30 10 2000 The Biochemical Society, London © 2001 2001 circular dichroism...
View article titled, Studies on a single immunoglobulin-binding domain of protein L from Peptostreptococcus magnus: the role of tyrosine-53 in the reaction with human IgG
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Articles

Coexpression of α and β subunits of prolyl 4-hydroxylase stabilizes the triple helix of recombinant human type X collagen

Klaus WAGNER, Ernst PÖSCHL, Javier TURNAY, Jeong-mi BAIK, Taina PIHLAJANIEMI, Svenja FRISCHHOLZ, Klaus VON DER MARK
Journal: Biochemical Journal
Biochem J (2000) 352 (3): 907–911.
https://doi.org/10.1042/bj3520907
Published: 08 December 2000
..., London © 2000 2000 circular dichroism hydroxylation hydroxyproline thermostability Biochem. J. (2000) 352, 907 911 (Printed in Great Britain) 907 Coexpression of a and b subunits of prolyl 4-hydroxylase stabilizes the triple helix of recombinant human type X collagen Klaus WAGNER*, Ernst PO...
View article titled, Coexpression of α and β subunits of prolyl 4-hydroxylase stabilizes the triple helix of recombinant human type X collagen
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Articles

Human T-lymphotrophic virus type I nucleocapsid protein NCp15: structural study and stability of the N-terminal zinc-finger

Françoise BERTOLA, Claude MANIGAND, Philippe PICARD, Maya BELGHAZI, Gilles PRECIGOUX
Journal: Biochemical Journal
Biochem J (2000) 352 (2): 293–300.
https://doi.org/10.1042/bj3520293
Published: 24 November 2000
... residue rather than to the Ne atom. Two-dimensional NMR techniques were used to determine the solution structure of the zinc-finger, illustrated by the existence of turns in the overall conformation. Key words: circular dichroism, mass spectrometry, peptide synthesis, solution structure, ultraviolet...
View article titled, Human T-lymphotrophic virus type I nucleocapsid protein NCp15: structural study and stability of the N-terminal zinc-finger
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Articles

Structure–function studies on Hsp47: pH-dependent inhibition of collagen fibril formation in vitro

Christy A. THOMSON, Vettai S. ANANTHANARAYANAN
Journal: Biochemical Journal
Biochem J (2000) 349 (3): 877–883.
https://doi.org/10.1042/bj3490877
Published: 25 July 2000
... to be the basis of the decreased binding of Hsp47 to collagen in Šitro at pH 6.3 as well as its inability to inhibit collagen fibril formation at this pH. Our results also provide a functional assay for Hsp47 that can be used in studies on collagen and Hsp47 interactions. Key words: circular dichroism, collagen...
View article titled, Structure–function studies on Hsp47: pH-dependent inhibition of collagen fibril formation in vitro
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Articles

Membrane-induced conformational change in human apolipoprotein H

Shao-Xiong WANG, Yu-Tong SUN, Sen-Fang SUI
Journal: Biochemical Journal
Biochem J (2000) 348 (1): 103–106.
https://doi.org/10.1042/bj3480103
Published: 09 May 2000
... is correlated with a certain conformational change in the secondary structure of the protein. 1 To whom correspondence should be addressed (e-mail suisf@;mail.tsinghua.edu.cn). 7 10 1999 7 2 2000 29 2 2000 The Biochemical Society, London © 2000 2000 circular dichroism 2...
View article titled, Membrane-induced conformational change in human apolipoprotein H
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Articles

Interaction of the N-terminus of sterol carrier protein 2 with membranes: role of membrane curvature

Huan HUANG, Judith M. BALL, Jeffrey T. BILLHEIMER, Friedhelm SCHROEDER
Journal: Biochemical Journal
Biochem J (1999) 344 (2): 593–603.
https://doi.org/10.1042/bj3440593
Published: 24 November 1999
... curvature as well as on lipid composition. 1 To whom correspondence should be addressed (e-mail [email protected]). 24 5 1999 1 9 1999 22 9 1999 The Biochemical Society, London © 1999 1999 amphipathic peptide cholesterol circular dichroism α-helix lipid transfer...
View article titled, Interaction of the N-terminus of sterol carrier protein 2 with membranes: role of membrane curvature
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Articles

Lipid-binding and antimicrobial properties of synthetic peptides of bovine apolipoprotein A-II

Mitsuyoshi MOTIZUKI, Takehito ITOH, Takanori SATOH, Sadaki YOKOTA, Muneo YAMADA, Seiichi SHIMAMURA, Tatsuya SAMEJIMA, Kunio TSURUGI
Journal: Biochemical Journal
Biochem J (1999) 342 (1): 215–221.
https://doi.org/10.1042/bj3420215
Published: 10 August 1999
... correspondence should be addressed (e-mail [email protected]). 7 1 1999 19 4 1999 4 6 1999 The Biochemical Society, London © 1999 1999 Antimicrobial peptide apolipoprotein A-II amphipathic helix circular dichroism Biochem. J. (1999) 342, 215 221 (Printed...
View article titled, Lipid-binding and antimicrobial properties of synthetic peptides of bovine apolipoprotein A-II
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Articles

Structural characterization of DNA and RNA sequences recognized by the gene 5 protein of bacteriophage fd

Antony W. OLIVER, G. Geoff KNEALE
Journal: Biochemical Journal
Biochem J (1999) 339 (3): 525–531.
https://doi.org/10.1042/bj3390525
Published: 26 April 1999
... acid is mediated through the formation of a guanine-tetraplex core region, in RNA this might be further stabilized by the presence of weaker uracil quartets. Key words: circular dichroism, dimethyl sulphate footprinting, guanine quartets, single-stranded-DNA-binding proteins, tetra- plexes. show...
View article titled, Structural characterization of DNA and RNA sequences recognized by the gene 5 protein of bacteriophage fd
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Articles

Prediction and experimental testing of Bacillus acidocaldarius thioredoxin stability

Emilia PEDONE, Raffaele CANNIO, Michele SAVIANO, Mosè ROSSI, Simonetta BARTOLUCCI
Journal: Biochemical Journal
Biochem J (1999) 339 (2): 309–317.
https://doi.org/10.1042/bj3390309
Published: 08 April 1999
...; 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-directed mutagenesis. Keywords: circular dichroism...
View article titled, Prediction and experimental testing of Bacillus acidocaldarius thioredoxin stability
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