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Keywords: protein structure
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Biochem J (2023) 480 (22): 1845–1863.
Published: 22 November 2023
... that require laborious experimental protocols. We believe that recent advances in protein structure prediction will be a powerful catalyst for the prediction of binding, mechanism, and ultimately, chemical reactions. A comprehensive mapping of enzyme function and evolution may be attainable in the near future...
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Biochem J (2023) 480 (7): 471–488.
Published: 13 April 2023
... This is an open access article published by Portland Press Limited on behalf of the Biochemical Society and distributed under the Creative Commons Attribution License 4.0 (CC BY) . bacteriophages CRISPR protein structure RNA-binding proteins Prokaryotes are under constant predation...
Includes: Supplementary data
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Biochem J (2022) 479 (6): 751–766.
Published: 28 March 2022
... on behalf of the Biochemical Society and distributed under the Creative Commons Attribution License 4.0 (CC BY) . fluorescence phosphorylation protein structure protein–protein interactions ubiquitin ubiquitin ligases All microscale thermophoresis (MST) experiments were performed using...
Includes: Supplementary data
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Biochem J (2021) 478 (15): 3015–3024.
Published: 10 August 2021
..., it does not exist. intrinsically disordered proteins protein conformation protein structure structure–function continuum Based on the Web of Science (as of the middle of July, 2021) data, there are almost 9500 papers dedicated to intrinsically disordered proteins (IDPs) that have been...
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Biochem J (2021) 478 (14): 2927–2944.
Published: 28 July 2021
... of the Biochemical Society and distributed under the Creative Commons Attribution License 4.0 (CC BY) . biofuels cytochrome electron transfer LPMO oxidation–reduction protein structure The production of second-generation biofuels from lignocellulosic waste in a cost-effective manner is a much...
Includes: Supplementary data
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Biochem J (2021) 478 (1): 197–215.
Published: 15 January 2021
...: Gary S. Shaw ( gshaw1@uwo.ca ) 28 9 2020 3 12 2020 7 12 2020 7 12 2020 © 2021 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2021 calcium signaling NMR spectroscopy protein structure Heteronuclear NOE experiments were...
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Biochem J (2020) 477 (24): 4785–4796.
Published: 24 December 2020
... 2020 arabidopsis thaliana crystallography protein structure tetrapyrroles Heme is an essential pigment for plants and participates in various key biological processes [ 1 ]. It carries electrons for the respiratory and photosynthetic electron transfer chains within mitochondria...
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Biochem J (2020) 477 (2): 491–508.
Published: 31 January 2020
... protein structure Acyl carrier proteins (ACPs) participate in the biosynthesis of fatty acids (FA) and polyketides by tethering intermediates to the enzyme complex [ 1 , 2 ]. In yeast and mammals, ACP is a component of fatty acid synthase, a multifunctional enzyme complex, whereas in bacteria, ACP...
Includes: Supplementary data
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Biochem J (2019) 476 (21): 3355–3368.
Published: 15 November 2019
... ) * These authors contributed equally to this study. 4 7 2019 18 10 2019 21 10 2019 21 10 2019 © 2019 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2019 crystal DNA-binding domain Myb domain protein structure rice blast fungus RNA...
Includes: Supplementary data
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Biochem J (2018) 475 (12): 2043–2055.
Published: 26 June 2018
... to enter into the clinical phases as YAP–TEAD disruptors due to their poor drug-like properties, the studies paved the way for further drug development. drug discovery and design NMR spectroscopy palmitoylation protein structure protein–protein Introduction The Hippo pathway is a conserved...
Includes: Supplementary data
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Biochem J (2018) 475 (9): 1533–1551.
Published: 04 May 2018
... This is an open access article published by Portland Press Limited on behalf of the Biochemical Society and distributed under the Creative Commons Attribution License 4.0 (CC BY-NC-ND) . arabinoxylan GH30 glycoside hydrolase family 30 protein structure structure–function Enzymes of glycoside...
Includes: Supplementary data
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Biochem J (2018) 475 (1): 247–260.
Published: 05 January 2018
... Limited on behalf of the Biochemical Society 2018 allosteric regulation phosphoribosyltransferase protein structure Allostery is a fundamental mechanism of biological regulation in which ligand binding at one protein site elicits a functional response at another site. The importance...
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Biochem J (2017) 474 (14): 2333–2347.
Published: 03 July 2017
... the functional differences in various N-glycosylation sites on the protein. 10 2 2017 14 4 2017 19 4 2017 © 2017 The Author(s); published by Portland Press Limited on behalf of the Biochemical Society 2017 glycosylation protein function protein stability protein structure...
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Biochem J (2017) 474 (13): 2219–2233.
Published: 21 June 2017
... by Portland Press Limited on behalf of the Biochemical Society 2017 enzyme activity enzymology molecular evolution protein structure ribonuclease RNA Vertebrate animals possess a distinct, conserved family of secreted ribonucleases (RNases) not known to occur in any other taxon. This unique...
Includes: Supplementary data
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Biochem J (2017) 474 (13): 2159–2175.
Published: 16 June 2017
... [ 16 ], or by activation of sirtuin 6 resulting in O -acetyl-ADPR, and upon further deacetylation, in ADPR [ 17 ]. Ca 2+ entering via the activated channel subsequently sensitizes the channel to ADPR, resulting in a positive feedback loop [ 18 ]. adenosine diphosphate ribose protein structure...
Includes: Supplementary data
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Biochem J (2016) 473 (20): 3705–3724.
Published: 11 October 2016
... folding protein structure solvation All MD simulations were performed with the GROMACS package [ 63 ]. Periodic boundary conditions were applied, and the particle mesh Ewald (PME) method [ 64 , 65 ] with a real-space cutoff of 1 nm was used to account for long-range electrostatics...
Includes: Supplementary data
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Biochem J (2016) 473 (18): 2763–2782.
Published: 12 September 2016
... on behalf of the Biochemical Society 2016 crystallography ezrin FERM domain protein dynamics protein structure small-angle scattering Each ERM protein contains three distinct domains [ 4 ]. The first is the highly conserved approximately 300-residue FERM domain [band F our-point-one (4.1...
Includes: Supplementary data
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Biochem J (2016) 473 (8): 1063–1072.
Published: 08 April 2016
... plasmids protein structure Prokaryotes are constantly faced with the threat of viral infection. Viruses that infect bacteria are called bacteriophages (or phages) and are the most abundant biological entities on earth, outnumbering their hosts by at least an order of magnitude [ 1 – 3 ]. The high...
Includes: Supplementary data
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Biochem J (2015) 466 (2): 219–232.
Published: 20 February 2015
... ) MALT1 paracaspase domain (MALT1-P) (PDB IB 3UOA). ( D ) Legumain (PDB ID 4AW9). ( E ) Gingipain R (PDB ID 1CVR). ( F ) MARTX-CPD (PDB ID 3GCD). Inhibitors used in complex structures are shown in Supplementary Table S1. caspase clan CD crystallography metacaspase peptidase protein structure...
Includes: Supplementary data
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Biochem J (2014) 463 (2): 297–307.
Published: 22 September 2014
.... membrane protein protein purification protein structure Slc26/SulP small-angle neutron scattering transporter The Slc26A proteins are a ubiquitous family of secondary anion transporters conserved from bacteria to man [ 1 ] which belong to the amino acid–polyamine–organocation (APC) superfamily...
Includes: Supplementary data
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Biochem J (2014) 459 (1): 59–69.
Published: 14 March 2014
.... activation loop cyclin G-associated kinase drug side effect kinase inhibitor nanobody protein structure In the present paper, we report the first crystal structures of the GAK catalytic domain. The apo structure of GAK revealed a dimeric assembly mediated by the disordered elongated activation...
Includes: Supplementary data
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Biochem J (2014) 457 (1): 33–41.
Published: 10 December 2013
... tuberculosis NlpC/p60 peptidoglycan binding proline-rich protein repeat protein structure The cell wall of Mycobacterium tuberculosis has a unique architecture that functions as a powerful barrier against physical and chemical stress [ 1 ]. In the outer layer of the cell envelope, complex...
Includes: Supplementary data
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Biochem J (2013) 453 (2): 155–166.
Published: 28 June 2013
... in black. antiviral defence cluster of regularly interspaced palindromic repeats (CRISPR) crystallography evolution protein structure repeat-associated mysterious protein (RAMP) CRISPRs (cluster of regularly interspaced palindromic repeats) are a prokaryotic defence mechanism against...
Includes: Supplementary data
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Biochem J (2013) 452 (2): 293–301.
Published: 10 May 2013
... the mixture was recalcified, and clotting time was determined and compared with a pooled normal plasma standard. blood coagulation Factor VIII fluorescence resonance energy transfer (FRET) phospholipid membrane protein structure F (Factor) VIII is a plasma protein that is decreased...
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Biochem J (2013) 452 (1): 87–95.
Published: 25 April 2013
... modelling protein structure repulsive guidance molecule Figure 2 Experimental approach for mapping disulfide linkages in HJV/RGMc ( A ) Analytical approach for identification of disulfide linkages in RGMc by MS. See the Materials and methods section for further details. ( B ) RGMc fusion...
Includes: Supplementary data
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Biochem J (2012) 446 (1): 149–157.
Published: 27 July 2012
.... chitinase chitinase-like proteins glycan glycan array glycobiology protein structure lectin X-ray crystallography The human genome possesses two genes coding for active chitinases, hCHT (chitotriosidase) and the hAMCase (acidic mammalian chitinase), both from the CAZy GH18 (glycoside...
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Biochem J (2012) 445 (2): 157–166.
Published: 27 June 2012
... Biochemical Society 2012 cryo-electron microscopy electron crystallography Helicobacter pylori membrane protein structure urea channel Urea is used as a nitrogen source by bacteria, fungi and plants, and is the most widely used agricultural nitrogen-containing fertilizer. In vertebrates...
Includes: Supplementary data
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Biochem J (2011) 439 (3): 375–381.
Published: 13 October 2011
... comparison and protein structure prediction Curr. Opin. Struct. Biol. 2006 16 374 384 32 McCleverty C. J. Hornsby M. Spraggon G. Kreusch A. Crystal structure of human Pus10, a novel pseudouridine synthase J. Mol. Biol. 2007 373 1243 54 33 Roberts E. Eargle J...
Includes: Supplementary data
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Biochem J (2011) 437 (3): 423–430.
Published: 13 July 2011
... 2011 12 5 2011 © The Authors Journal compilation © 2011 Biochemical Society 2011 Anopheles gambiae C-plus class odorant-binding protein odorant transport olfactory protein protein structure Figure 1 Evolutionary tree and sequence alignment of C-plus OBPs from...
Includes: Multimedia, Supplementary data
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Biochem J (2010) 429 (3): 553–563.
Published: 14 July 2010
.... 1 To whom correspondence should be addressed (email jason.young2@mcgill.ca ). 7 12 2009 16 5 2010 26 5 2010 26 5 2010 © The Authors Journal compilation © 2010 Biochemical Society 2010 chaperone dimerization heat-shock protein (Hsp) mitochondrion protein...
Includes: Supplementary data
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Biochem J (2010) 426 (3): 281–292.
Published: 24 February 2010
... of these authors (email R.HurtadoGuerrero@dundee.ac.uk or dmfvanaalten@dundee.ac.uk ). elongation factor 1A (EF1A) glucosyl transferase Legionella pneumophila microinjection site-directed mutagenesis protein structure The structural co-ordinates reported will appear in the Protein Data Bank...
Includes: Supplementary data
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Biochem J (2009) 421 (1): 87–96.
Published: 12 June 2009
... is coupled with kinetic stabilization; the bulky polysaccharide chains inhibit formation of a residual structure in the unfolded glycoprotein [ 11 ]. Nevertheless, the analysis of glycosylation sites in the protein structure databases still emphasizes the structural role of glycosylation in the folded state...
Includes: Supplementary data
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Biochem J (2009) 419 (1): 15–28.
Published: 13 March 2009
... versatility ( r 2 =0.75) [ 63 ]. Alternative splicing can affect protein structure to a greater extent than gene duplication and divergence, and they might be thought of as independent processes. However, an examination of the extent to which protein families undergo gene duplications and alternative...
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Biochem J (2009) 418 (3): 541–551.
Published: 25 February 2009
... 3FCG. 19 5 2008 3 11 2008 25 11 2008 25 11 2008 © The Authors Journal compilation © 2009 Biochemical Society 2009 assembly chaperone/usher pathway fimbrial adhesins protein structure secretion The chaperone/usher pathway [ 1 , 2 ] represents one...
Includes: Supplementary data
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Biochem J (2008) 416 (3): 317–326.
Published: 26 November 2008
... methylglyoxal-derived advanced glycation end-product (MAGE) protein glycation protein structure Enolase activity was determined at 30 °C in a 1.5 ml reaction volume, on a Beckman DU-7400 diode array spectrophotometer, with temperature control and magnetic stirring, essential to maintain isotropic...