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Structural and functional characterisation of a stable, broad-specificity multimeric sialidase from the oral pathogen Tannerella forsythia

Marianne J Satur, Paulina Urbanowicz, Daniel R Spencer, John B Rafferty, Graham Philip Stafford

Biochem J (2022) BCJ20220244.

DOI: https://doi.org/10.1042/BCJ20220244

Published: 02 August 2022

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Gain of function of a metalloproteinase associated with multiple myeloma, bicuspid aortic valve, and Von Hippel–Lindau syndrome

Scott J. Snipas, Roberto Jappelli, Ali Torkamani, Giovanni Paternostro, Guy S. Salvesen

Biochem J (2022) 479 (14): 1533–1542.

DOI: https://doi.org/10.1042/BCJ20220166

Published: 21 July 2022

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Binding of the Mycobacterium tuberculosis EccCb1 ATPase double hexameric ring to the EsxAB virulence factor is enhanced by ATP

Arkita Bandyopadhyay, Ramesh Kumar, Jyotsna Singh, Ajay K. Saxena

Biochem J (2022) 479 (14): 1559–1579.

DOI: https://doi.org/10.1042/BCJ20210430

Published: 21 July 2022

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Binding partners regulate unfolding of myosin VI to activate the molecular motor

Ália dos Santos, Natalia Fili, Yukti Hari-Gupta, Rosemarie E. Gough, Lin Wang, Marisa Martin-Fernandez, Jesse Aaron, Eric Wait, Teng-Leong Chew, Christopher P. Toseland

Biochem J (2022) 479 (13): 1409–1428.

DOI: https://doi.org/10.1042/BCJ20220025

Published: 04 July 2022

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Characterization of uridine-cytidine kinase like-1 nucleoside kinase activity and its role in tumor growth

Emily C. Matchett, Elise C. Ambrose, Jacki Kornbluth

Biochem J (2022) 479 (11): 1149–1164.

DOI: https://doi.org/10.1042/BCJ20210770

Published: 08 June 2022

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NAD-catabolizing ectoenzymes of Schistosoma mansoni

Catherine S. Nation, Akram A. Da'Dara, Patrick J. Skelly

Biochem J (2022) 479 (11): 1165–1180.

DOI: https://doi.org/10.1042/BCJ20210784

Published: 08 June 2022

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Improved furfural tolerance in Escherichia coli mediated by heterologous NADH-dependent benzyl alcohol dehydrogenases

Benjamin James Willson, Reyme Herman, Swen Langer, Gavin Hugh Thomas

Biochem J (2022) 479 (10): 1045–1058.

DOI: https://doi.org/10.1042/BCJ20210811

Published: 23 May 2022

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Distinct phosphorylation signals drive acceptor versus free ubiquitin chain targeting by parkin

Karen M. Dunkerley, Anne C. Rintala-Dempsey, Giulia Salzano, Roya Tadayon, Dania Hadi, Kathryn R. Barber, Helen Walden, Gary S. Shaw

Biochem J (2022) 479 (6): 751–766.

DOI: https://doi.org/10.1042/BCJ20210741

Published: 28 March 2022

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Co-evolution of drug resistance and broadened substrate recognition in HIV protease variants isolated from an Escherichia coli genetic selection system

Johanna Maarit Koivisto, Nina Rødtness Poulsen, Benedikte Stoklund Larsen, M.G.M. Weibull, Amelie Stein, Fabio Doro, Jakob Rahr Winther, Kresten Lindorff-Larsen, Martin Willemoës

Biochem J (2022) 479 (4): 479–501.

DOI: https://doi.org/10.1042/BCJ20210767

Published: 17 February 2022

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The structure and function of modular Escherichia coli O157:H7 bacteriophage FTBEc1 endolysin, LysT84: defining a new endolysin catalytic subfamily

Michael J. Love, David Coombes, Salim Ismail, Craig Billington, Renwick C. J. Dobson

Biochem J (2022) 479 (2): 207–223.

DOI: https://doi.org/10.1042/BCJ20210701

Published: 28 January 2022

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The optimal pH of AID is skewed from that of its catalytic pocket by DNA-binding residues and surface charge

Atefeh Ghorbani, Justin J. King, Mani Larijani

Biochem J (2022) 479 (1): 39–55.

DOI: https://doi.org/10.1042/BCJ20210529

Published: 06 January 2022

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Serine acetyltransferase from Neisseria gonorrhoeae ; structural and biochemical basis of inhibition

Keely E. A. Oldham, Erica J. Prentice, Emma L. Summers, Joanna L. Hicks

Biochem J (2022) 479 (1): 57–74.

DOI: https://doi.org/10.1042/BCJ20210564

Published: 06 January 2022

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A conserved NAG motif is critical to the catalytic activity of galactinol synthase, a key regulatory enzyme of RFO biosynthesis

Prafull Salvi, Bhavnesh Kumar, Nitin Uttam Kamble, Abhijit Hazra, Manoj Majee

Biochem J (2021) 478 (21): 3939–3955.

DOI: https://doi.org/10.1042/BCJ20210703

Published: 12 November 2021

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Intelligent host engineering for metabolic flux optimisation in biotechnology

Lachlan J. Munro, Douglas B. Kell

Biochem J (2021) 478 (20): 3685–3721.

DOI: https://doi.org/10.1042/BCJ20210535

Published: 21 October 2021

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Crystallographic approach to fragment-based hit discovery against Schistosoma mansoni purine nucleoside phosphorylase

Muhammad Faheem, Napoleão Fonseca Valadares, José Brandão-Neto, Dom Bellini, Patrick Collins, Nicholas M. Pearce, Louise Bird, Juliana Roberta Torini, Raymond Owens, Humberto DMuniz Pereira, Frank Von Delft, João Alexandre Ribeiro Gonçalves Barbosa

Biochem J (2021) 478 (19): 3655–3670.

DOI: https://doi.org/10.1042/BCJ20210041

Published: 14 October 2021

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Characterization of subunit interactions in the hetero-oligomeric retinoid oxidoreductase complex

Mark K. Adams, Olga V. Belyaeva, Lizhi Wu, Ivis F. Chaple, Katelyn Dunigan-Russell, Kirill M. Popov, Natalia Y. Kedishvili

Biochem J (2021) 478 (19): 3597–3611.

DOI: https://doi.org/10.1042/BCJ20210589

Published: 08 October 2021

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The many ways that nature has exploited the unusual structural and chemical properties of phosphohistidine for use in proteins

Rajasree Kalagiri, Tony Hunter

Biochem J (2021) 478 (19): 3575–3596.

DOI: https://doi.org/10.1042/BCJ20210533

Published: 08 October 2021

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Insight into the function of active site residues in the catalytic mechanism of human ferrochelatase

Amy E. Medlock, Wided Najahi-Missaoui, Mesafint T. Shiferaw, Angela N. Albetel, William N. Lanzilotta, Harry A. Dailey,, Jr

Biochem J (2021) 478 (17): 3239–3252.

DOI: https://doi.org/10.1042/BCJ20210460

Published: 07 September 2021

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Conserved L464 in p97 D1–D2 linker is critical for p97 cofactor regulated ATPase activity

Xiaoyi Zhang, Lin Gui, Shan Li, Purbasha Nandi, Rod Carlo Columbres, Daniel E. Wong, Derek R. Moen, Henry J. Lin, Po-Lin Chiu, Tsui-Fen Chou

Biochem J (2021) 478 (17): 3185–3204.

DOI: https://doi.org/10.1042/BCJ20210288

Published: 07 September 2021

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Decoding the consecutive lysosomal degradation of 3- O -sulfate containing heparan sulfate by Arylsulfatase G (ARSG)

Björn Kowalewski, Heike Lange, Sabrina Galle, Thomas Dierks, Torben Lübke, Markus Damme

Biochem J (2021) 478 (17): 3221–3237.

DOI: https://doi.org/10.1042/BCJ20210415

Published: 07 September 2021

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Electron inventory of the iron-sulfur scaffold complex HypCD essential in [NiFe]-hydrogenase cofactor assembly

Sven T. Stripp, Jonathan Oltmanns, Christina S. Müller, David Ehrenberg, Ramona Schlesinger, Joachim Heberle, Lorenz Adrian, Volker Schünemann, Antonio J. Pierik, Basem Soboh

Biochem J (2021) 478 (17): 3281–3295.

DOI: https://doi.org/10.1042/BCJ20210224

Published: 07 September 2021

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Kinases leave their mark on caspase substrates

Amy M. Weeks

Biochem J (2021) 478 (17): 3179–3184.

DOI: https://doi.org/10.1042/BCJ20210399

Published: 07 September 2021

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Conservation of endo -glucanase 16 (EG16) activity across highly divergent plant lineages

Hila Behar, Kazune Tamura, Edward R. Wagner, Daniel J. Cosgrove, Harry Brumer

Biochem J (2021) 478 (16): 3063–3078.

DOI: https://doi.org/10.1042/BCJ20210341

Published: 20 August 2021

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Engineering potassium activation into biosynthetic thiolase

Andrew C. Marshall, John B. Bruning

Biochem J (2021) 478 (15): 3047–3062.

DOI: https://doi.org/10.1042/BCJ20210455

Published: 13 August 2021

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Investigation of the specificity and mechanism of action of the ULK1/AMPK inhibitor SBI-0206965

Danial Ahwazi, Katyayanee Neopane, Greg R. Markby, Franziska Kopietz, Ashley J. Ovens, Morten Dall, Anna S. Hassing, Pamina Gräsle, Yazeed Alshuweishi, Jonas T. Treebak, Ian P. Salt, Olga Göransson, Elton Zeqiraj, John W. Scott, Kei Sakamoto

Biochem J (2021) 478 (15): 2977–2997.

DOI: https://doi.org/10.1042/BCJ20210284

Published: 10 August 2021

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C -type cytochrome-initiated reduction of bacterial lytic polysaccharide monooxygenases

Jessie Branch, Badri S. Rajagopal, Alessandro Paradisi, Nick Yates, Peter J. Lindley, Jake Smith, Kristian Hollingsworth, W. Bruce Turnbull, Bernard Henrissat, Alison Parkin, Alan Berry, Glyn R. Hemsworth

Biochem J (2021) 478 (14): 2927–2944.

DOI: https://doi.org/10.1042/BCJ20210376

Published: 28 July 2021

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Conformational plasticity of the ULK3 kinase domain

Sebastian Mathea, Eidarus Salah, Cynthia Tallant, Deep Chatterjee, Benedict-Tilman Berger, Rebecca Konietzny, Susanne Müller, Benedikt M. Kessler, Stefan Knapp

Biochem J (2021) 478 (14): 2811–2823.

DOI: https://doi.org/10.1042/BCJ20210257

Published: 23 July 2021

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Mapping the substrate specificity of the Plasmodium M1 and M17 aminopeptidases

Tess R. Malcolm, Karolina W. Swiderska, Brooke K. Hayes, Chaille T. Webb, Marcin Drag, Nyssa Drinkwater, Sheena McGowan

Biochem J (2021) 478 (13): 2697–2713.

DOI: https://doi.org/10.1042/BCJ20210172

Published: 16 July 2021

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Characterization of caspase-7 interaction with RNA

Alexandre Desroches, Jean-Bernard Denault

Biochem J (2021) 478 (13): 2681–2696.

DOI: https://doi.org/10.1042/BCJ20210366

Published: 16 July 2021

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Structure of an open conformation of T7 DNA polymerase reveals novel structural features regulating primer-template stabilization at the polymerization active site

Víctor Juarez-Quintero, Antolín Peralta-Castro, Claudia G. Benítez Cardoza, Tom Ellenberger, Luis G. Brieba

Biochem J (2021) 478 (13): 2665–2679.

DOI: https://doi.org/10.1042/BCJ20200922

Published: 16 July 2021

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SMCHD1's ubiquitin-like domain is required for N-terminal dimerization and chromatin localization

Alexandra D. Gurzau, Christopher R. Horne, Yee-Foong Mok, Megan Iminitoff, Tracy A. Willson, Samuel N. Young, Marnie E. Blewitt, James M. Murphy

Biochem J (2021) 478 (13): 2555–2569.

DOI: https://doi.org/10.1042/BCJ20210278

Published: 09 July 2021

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The structures of E. coli NfsA bound to the antibiotic nitrofurantoin; to 1,4-benzoquinone and to FMN

Martin A. Day, David Jarrom, Andrew J. Christofferson, Antonio E. Graziano, J. L. Ross Anderson, Peter F. Searle, Eva I. Hyde, Scott A. White

Biochem J (2021) 478 (13): 2601–2617.

DOI: https://doi.org/10.1042/BCJ20210160

Published: 09 July 2021

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Recognition and repair of oxidatively generated DNA lesions in plasmid DNA by a facilitated diffusion mechanism

Marina Kolbanovskiy, Abraham Aharonoff, Ana Helena Sales, Nicholas E. Geacintov, Vladimir Shafirovich

Biochem J (2021) 478 (12): 2359–2370.

DOI: https://doi.org/10.1042/BCJ20210095

Published: 23 June 2021

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Diversified amino acid-mediated allosteric regulation of phosphoglycerate dehydrogenase for serine biosynthesis in land plants

Eiji Okamura, Kinuka Ohtaka, Ryuichi Nishihama, Kai Uchida, Ayuko Kuwahara, Keiichi Mochida, Masami Yokota Hirai

Biochem J (2021) 478 (12): 2217–2232.

DOI: https://doi.org/10.1042/BCJ20210191

Published: 18 June 2021

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Evaluation of the effects of phosphorylation of synthetic peptide substrates on their cleavage by caspase-3 and -7

Izabela Maluch, Justyna Grzymska, Scott J. Snipas, Guy S. Salvesen, Marcin Drag

Biochem J (2021) 478 (12): 2233–2245.

DOI: https://doi.org/10.1042/BCJ20210255

Published: 18 June 2021

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Functional role of residues involved in substrate binding of human 4-hydroxyphenylpyruvate dioxygenase

Chih-Wei Huang, Chi-Ching Hwang, Yung-Lung Chang, Jen-Tzu Liu, Sheng-Peng Wu, Kai-Ling Huang, Wei-min Huang, Hwei-Jen Lee

Biochem J (2021) 478 (12): 2201–2215.

DOI: https://doi.org/10.1042/BCJ20210005

Published: 18 June 2021

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Identification of the contact region responsible for the formation of the homomeric CYP1A2•CYP1A2 complex

Aratrika Saha, J. Patrick Connick, James R. Reed, Charles S. Lott, Wayne L. Backes

Biochem J (2021) 478 (11): 2163–2178.

DOI: https://doi.org/10.1042/BCJ20210269

Published: 11 June 2021

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Insights into the substrate discrimination mechanisms of methyl-CpG-binding domain 4

Hala Ouzon-Shubeita, Lillian F. Schmaltz, Seongmin Lee

Biochem J (2021) 478 (10): 1985–1997.

DOI: https://doi.org/10.1042/BCJ20210017

Published: 28 May 2021

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Conformational changes during the reaction cycle of plasma membrane Ca 2+ -ATPase in the autoinhibited and activated states

Nicolás A. Saffioti, Marilina de Sautu, Ana Sol Riesco, Mariela S. Ferreira-Gomes, Juan Pablo F. C. Rossi, Irene C. Mangialavori

Biochem J (2021) 478 (10): 2019–2034.

DOI: https://doi.org/10.1042/BCJ20210036

Published: 28 May 2021

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Abiological catalysis by myoglobin mutant with a genetically incorporated unnatural amino acid

Subhash Chand, Sriparna Ray, Poonam Yadav, Susruta Samanta, Brad S. Pierce, Roshan Perera

Biochem J (2021) 478 (9): 1795–1808.

DOI: https://doi.org/10.1042/BCJ20210091

Published: 14 May 2021

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Structures of an engineered phospholipase D with specificity for secondary alcohol transphosphatidylation: insights into plasticity of substrate binding and activation

Ariela Samantha, Jasmina Damnjanović, Yugo Iwasaki, Hideo Nakano, Alice Vrielink

Biochem J (2021) 478 (9): 1749–1767.

DOI: https://doi.org/10.1042/BCJ20210117

Published: 10 May 2021

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Characterization of tolloid-mediated cleavage of the GDF8 procomplex

Jason C. McCoy, Erich J. Goebel, Thomas B. Thompson

Biochem J (2021) 478 (9): 1733–1747.

DOI: https://doi.org/10.1042/BCJ20210054

Published: 10 May 2021

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Insights into the mismatch discrimination mechanism of Y-family DNA polymerase Dpo4

Hunmin Jung, Seongmin Lee

Biochem J (2021) 478 (9): 1769–1781.

DOI: https://doi.org/10.1042/BCJ20210162

Published: 10 May 2021

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Classification, structural biology, and applications of mucin domain-targeting proteases

D. Judy Shon, Angel Kuo, Michael J. Ferracane, Stacy A. Malaker

Biochem J (2021) 478 (8): 1585–1603.

DOI: https://doi.org/10.1042/BCJ20200607

Published: 28 April 2021

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Appropriate aglycone modification significantly expands the glycan substrate acceptability of α1,6-fucosyltransferase (FUT8)

Roushu Zhang, Qiang Yang, Bhargavi M. Boruah, Guanghui Zong, Chao Li, Digantkumar Chapla, Jeong-Yeh Yang, Kelley W. Moremen, Lai-Xi Wang

Biochem J (2021) 478 (8): 1571–1583.

DOI: https://doi.org/10.1042/BCJ20210138

Published: 21 April 2021

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Protecting P-type plasma membrane H + -ATPases from ROS

Sarah C. Stainbrook, Joseph M. Jez

Biochem J (2021) 478 (8): 1511–1513.

DOI: https://doi.org/10.1042/BCJ20210109

Published: 21 April 2021

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Pyrophosphate as an alternative energy currency in plants

Abir U. Igamberdiev, Leszek A. Kleczkowski

Biochem J (2021) 478 (8): 1515–1524.

DOI: https://doi.org/10.1042/BCJ20200940

Published: 21 April 2021

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DNA Polymerase and dRP-lyase activities of polymorphic variants of human Pol ι

Evgeniy S. Shilkin, Anastasia S. Gromova, Margarita P. Smal, Alena V. Makarova

Biochem J (2021) 478 (7): 1399–1412.

DOI: https://doi.org/10.1042/BCJ20200491

Published: 16 April 2021

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Comprehensive analyses of the cysteine thiol oxidation of PKM2 reveal the effects of multiple oxidation on cellular oxidative stress response

Hayato Irokawa, Satoshi Numasaki, Shin Kato, Kenta Iwai, Atsushi Inose-Maruyama, Takumi Ohdate, Gi-Wook Hwang, Takashi Toyama, Toshihiko Watanabe, Shusuke Kuge

Biochem J (2021) 478 (7): 1453–1470.

DOI: https://doi.org/10.1042/BCJ20200897

Published: 16 April 2021

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Deaminated purine bypass by DNA polymerase η

Antonina Andreeva

Biochem J (2021) 478 (7): 1309–1313.

DOI: https://doi.org/10.1042/BCJ20200989

Published: 29 March 2021

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