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Articles

Characterisation of an Influenza B virus-derived peptide presented by HLA-B*18:01

Lawton D Murdolo, Samuel Liwei Leong, Janesha C Maddumage, Nicole Mifsud, Demetra SM Chatzileontiadou, Emma J Grant, Stephanie Gras

Biochem J (2025) BCJ20240739.

https://doi.org/10.1042/BCJ20240739

Published: 26 June 2025

... crystallography molecular dynamics Influenza B virus HLA-B*18:01 CD8+ T cells X-ray crystallography molecular dynamics Influenza B virus HLA-B*18:01 CD8+ T cells X-ray crystallography molecular dynamics La Trobe University (LTU) La Trobe University RTP Scholarship Australian Institute...

View article titled, Characterisation of an Influenza B virus-derived peptide presented by HLA-B*18:01

Articles

Structural and functional characterization of a mycobacterial methylenetetrahydrofolate reductase utilizing NADH as the exclusive cofactor

Jiacong Li, Mingxia Yang, Weijia Li, Chujie Lu, Deyu Feng, Zhuo Shang, Chengyuan Wang, Wei Lin

Biochem J (2023) 480 (14): 1129–1146.

https://doi.org/10.1042/BCJ20230138

Published: 19 July 2023

... 7 2023 12 7 2023 © 2023 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2023 5 10-methylenetetraydrofolate reductase anti-mycobacterial drug folate Mycobacterium smegmatis NADH X-ray crystallography Figure 1. Summarized...

View article titled, Structural and functional characterization of a mycobacterial methylenetetrahydrofolate reductase utilizing NADH as the exclusive cofactor

Includes: Supplementary data

Articles

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.

https://doi.org/10.1042/BCJ20210041

Published: 14 October 2021

... space groups, 6 conditions were assigned to the space group P 2 1 3 and 3 conditions were indexed as F4 1 3 2. fragment screening PNP2 purine nucleoside phosphorylase Schistosoma mansoni X-ray crystallography Crystals were reproduced in three well crystallization Swissci plates...

View article titled, Crystallographic approach to fragment-based hit discovery against Schistosoma mansoni purine nucleoside phosphorylase

Articles

Structural and calorimetric studies reveal specific determinants for the binding of a high-affinity NLS to mammalian importin-alpha

Hamine C. de Oliveira, Tainá D. da Silva, Guilherme H. M. Salvador, Ivan R. Moraes, Cíntia A. Fukuda, Andrea C. de Barros, Marcos R. M. Fontes

Biochem J (2021) 478 (13): 2715–2732.

https://doi.org/10.1042/BCJ20210401

Published: 16 July 2021

...) with a wavelength of 1.425 Å (at 100 K) and a PILATUS 2 M detector (Dectris). Correspondence: Marcos R. M. Fontes ([email protected]) importin isothermal titration calorimetry nuclear localization sequence nucleocytoplasmatic transport X-ray crystallography The gene encoding...

View article titled, Structural and calorimetric studies reveal specific determinants for the binding of a high-affinity NLS to mammalian importin-alpha

Articles

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.

https://doi.org/10.1042/BCJ20210117

Published: 10 May 2021

... substrate recognition X-ray crystallography Phospholipids (PLs) are important biological molecules that play critical roles in the maintenance of cell membrane integrity as well as participating in a number of metabolic processes [ 1 , 2 ]. They are also used as food additives, in drug delivery...

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

Includes: Supplementary data

Articles

Structural insights into histone chaperone Asf1 and its characterization from Plasmodium falciparum

Dushyant Kumar Srivastava, Sarika Gunjan, Chandrima Das, Vasudevan Seshadri, Siddhartha Roy

Biochem J (2021) 478 (5): 1117–1136.

https://doi.org/10.1042/BCJ20200891

Published: 10 March 2021

... in different stages of the life cycle of the parasite. To gain further insight into its biological activity, we solved the structure of N-terminal histone chaperone domain of PfAsf1 (1–159 amino acids) by X-ray crystallography to a resolution of 2.4 Å. The structure is composed of two beta-sheet to form a beta...

View article titled, Structural insights into histone chaperone Asf1 and its characterization from Plasmodium falciparum

Includes: Supplementary data

Articles

Crystal structure of human APPL BAR-PH heterodimer reveals a flexible dimeric BAR curve: implication in mutual regulation of endosomal targeting

Yujie Chen, Wen Zhang, Bin Chen, Ying Liu, Yuhui Dong, Aimin Xu, Quan Hao

Biochem J (2020) 477 (24): 4769–4783.

https://doi.org/10.1042/BCJ20200438

Published: 24 December 2020

... crystallography curvature endocytosis heterodimer APPL1 APPL2 curvature endocytosis heterodimerization structure x-ray crystallography In response to extracellular stimuli, signaling transduction usually elicits endocytosis and intracellular trafficking of plasma membrane receptors, which...

View article titled, Crystal structure of human APPL BAR-PH heterodimer reveals a flexible dimeric BAR curve: implication in mutual regulation of endosomal targeting

Includes: Supplementary data

Articles

Crystal structure of Leptospira leucine-rich repeat 20 reveals a novel E-cadherin binding protein to induce NGAL expression in HK2 cells

Shen-Hsing Hsu, Chen-Hsi Chu, Ya-Chung Tian, Ming-Yang Chang, Li-Feng Chou, Yuh-Ju Sun, Chih-Wei Yang

Biochem J (2020) 477 (21): 4313–4326.

https://doi.org/10.1042/BCJ20200547

Published: 13 November 2020

... were repeated three times and P -values of <0.05 were considered statistically significant. E-cadherin leptospirosis leucine-rich repeat NGAL X-ray crystallography Leptospirosis caused by pathogenic spirochetes is one of the most neglected zoonotic diseases in tropical...

View article titled, Crystal structure of Leptospira leucine-rich repeat 20 reveals a novel E-cadherin binding protein to induce NGAL expression in HK2 cells

Articles

Structural insight into HEMK2–TRMT112-mediated glutamine methylation

Jie Gao, Bin Wang, Huijuan Yu, Gao Wu, Cuihong Wan, Wenting Liu, Shanhui Liao, Liansheng Cheng, Zhongliang Zhu

Biochem J (2020) 477 (19): 3833–3838.

https://doi.org/10.1042/BCJ20200594

Published: 12 October 2020

... 2020 © 2020 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2020 glutamine methylation HEMK2 SAM/SAH TRMT112 x-ray crystallography Post-translational modifications of proteins, including phosphorylation, acetylation, and methylation...

View article titled, Structural insight into HEMK2–TRMT112-mediated glutamine methylation

Includes: Supplementary data

Articles

Structural and functional characterisation of human RNA helicase DHX8 provides insights into the mechanism of RNA-stimulated ADP release

Catarina Felisberto-Rodrigues, Jemima C. Thomas, Craig McAndrew, Yann-Vaï Le Bihan, Rosemary Burke, Paul Workman, Rob L. M. van Montfort

Biochem J (2019) 476 (18): 2521–2543.

https://doi.org/10.1042/BCJ20190383

Published: 14 September 2019

... h. Infected cultures were harvested ∼48 h post-infection and the cell pellets stored at −80°C. DEAH-box helicase DHX8 RNA binding splicing X-ray crystallography All ATPase assays were performed using the ADP Glo Max assay system (Promega, Southampton, U.K.) in white 384-well OptiPlates...

View article titled, Structural and functional characterisation of human RNA helicase DHX8 provides insights into the mechanism of RNA-stimulated ADP release

Includes: Supplementary data

Articles

Conservation of the structural and functional architecture of encapsulated ferritins in bacteria and archaea

Didi He, Cecilia Piergentili, Jennifer Ross, Emma Tarrant, Laura R. Tuck, C. Logan Mackay, Zak McIver, Kevin J. Waldron, David J. Clarke, Jon Marles-Wright

Biochem J (2019) 476 (6): 975–989.

https://doi.org/10.1042/BCJ20180922

Published: 22 March 2019

... on behalf of the Biochemical Society 2019 encapsulated ferritin encapsulin ferritin mass spectrometry X-ray crystallography The encapsulin protein family is structurally related to the HK97 bacteriophage shell protein and they form icosahedral nanocages of between 25 and 35 nm in diameter...

View article titled, Conservation of the structural and functional architecture of encapsulated ferritins in bacteria and archaea

Includes: Supplementary data

Articles

Structural insights into lethal contractural syndrome type 3 (LCCS3) caused by a missense mutation of PIP5Kγ

Xuankun Zeng, Arzu Uyar, Dexin Sui, Nazanin Donyapour, Dianqing Wu, Alex Dickson, Jian Hu

Biochem J (2018) 475 (14): 2257–2269.

https://doi.org/10.1042/BCJ20180326

Published: 25 July 2018

... simulation phosphatidylinositol 4 5-bisphosphate phosphatidylinositol 4-phosphate 5-kinase X-ray crystallography zPIP5Kα (GenBank: AAH95318.1) and the mutant proteins were prepared as reported previously [ 14 ]. In brief, the plasmid of pET41b harboring the codon-optimized gene of zPIP5Kα (kinase...

View article titled, Structural insights into lethal contractural syndrome type 3 (LCCS3) caused by a missense mutation of PIP5Kγ

Includes: Supplementary data

Articles

Structure and lipid-binding properties of the kindlin-3 pleckstrin homology domain

Tao Ni, Antreas C. Kalli, Fiona B. Naughton, Luke A. Yates, Omar Naneh, Mirijam Kozorog, Gregor Anderluh, Mark S.P. Sansom, Robert J.C. Gilbert

Biochem J (2017) 474 (4): 539–556.

https://doi.org/10.1042/BCJ20160791

Published: 03 February 2017

.... This would explain how an apparently low affinity for inositol phosphates can be biologically relevant to the localisation of kindlins to the plasma membrane and their subsequent activation of integrins. lipid clustering molecular dynamics PH domain surface plasmon resonance X-ray crystallography...

View article titled, Structure and lipid-binding properties of the kindlin-3 pleckstrin homology domain

Includes: Supplementary data

Articles

Structure and function of carbonic anhydrases

Claudiu T. Supuran

Biochem J (2016) 473 (14): 2023–2032.

https://doi.org/10.1042/BCJ20160115

Published: 12 July 2016

... metalloenzyme X-ray crystallography The carbonic anhydrases (CAs, EC 4.2.1.1) belong to a superfamily of metalloenzymes which use as substrates some unusually chemically simple molecules/ions, as they catalyse the interconversion between CO 2 and bicarbonate [ 1 – 13 ]. Although this reaction may...

View article titled, Structure and function of carbonic anhydrases

Articles

Structure of Gremlin-1 and analysis of its interaction with BMP-2

Miglė Kišonaitė, Xuelu Wang, Marko Hyvönen

Biochem J (2016) 473 (11): 1593–1604.

https://doi.org/10.1042/BCJ20160254

Published: 27 May 2016

... transforming growth factor-β (TGF-β) X-ray crystallography Gremlin-1 is an extracellular antagonist of the bone morphogenetic proteins (BMPs) and functions by directly neutralizing its ligands and inhibiting BMP signalling [ 1 – 4 ]. BMPs, together with their antagonists, are responsible...

View article titled, Structure of Gremlin-1 and analysis of its interaction with BMP-2

Includes: Supplementary data

Articles

Structural and functional insight into the different oxidation states of SAV1875 from Staphylococcus aureus

Hyo Jung Kim, Ae-Ran Kwon, Bong-Jin Lee

Biochem J (2016) 473 (1): 55–66.

https://doi.org/10.1042/BJ20150256

Published: 09 December 2015

... states of Cys 105 were determined by MS and native PAGE. chaperone cysteine DJ-1 superfamily oxidation SAV1875 Staphylococcus aureus X-ray crystallography Staphylococcus aureus is one of the most common pathogens, causing various diseases ranging from mild infections...

View article titled, Structural and functional insight into the different oxidation states of SAV1875 from Staphylococcus aureus

Includes: Supplementary data

Articles

Determinants of oligosaccharide specificity of the carbohydrate-binding modules of AMP-activated protein kinase

Jesse I. Mobbs, Ann Koay, Alex Di Paolo, Michael Bieri, Emma J. Petrie, Michael A. Gorman, Larissa Doughty, Michael W. Parker, David I. Stapleton, Michael D.W. Griffin, Paul R. Gooley

Biochem J (2015) 468 (2): 245–257.

https://doi.org/10.1042/BJ20150270

Published: 22 May 2015

... calorimetry nuclear magnetic resonance spectroscopy X-ray crystallography We solved the structures of β1- and β2-carbohydrate-binding modules (CBMs) of AMP-activated protein kinase (AMPK) bound to a branched carbohydrate. The additional threonine within the β2-module allows it to bind single α1,6...

View article titled, Determinants of oligosaccharide specificity of the carbohydrate-binding modules of AMP-activated protein kinase

Includes: Supplementary data

Articles

Notch ligand delta-like1: X-ray crystal structure and binding affinity

Nadia J. Kershaw, Nicole L. Church, Michael D.W. Griffin, Cindy S. Luo, Timothy E. Adams, Antony W. Burgess

Biochem J (2015) 468 (1): 159–166.

https://doi.org/10.1042/BJ20150010

Published: 05 May 2015

... fragment of any Notch ligand structure to date. Comparison with the Jagged1 structures reveals similarities and differences between the ligand families and potential receptor binding sites. cell signalling cell surface protein C2 domain epidermal growth factor (EGF)-like repeat Notch X-ray...

View article titled, Notch ligand delta-like1: X-ray crystal structure and binding affinity

Includes: Supplementary data

Articles

Aminoacetone oxidase from Streptococcus oligofermentans belongs to a new three-domain family of bacterial flavoproteins

Gianluca Molla, Marco Nardini, Paolo Motta, Paola D’Arrigo, Walter Panzeri, Loredano Pollegioni

Biochem J (2014) 464 (3): 387–399.

https://doi.org/10.1042/BJ20140972

Published: 05 December 2014

... belongs to a novel family of flavoproteins which catalyses the condensation of two aminoacetone molecules yielding 3,6-dimethyl-2,5-dihydropyrazine and, eventually, 2,5-dimethylpyrazine. aminoacetone 2 5-dimethylpyrazine enzyme structure flavoprotein X-ray crystallography Streptococci...

View article titled, Aminoacetone oxidase from Streptococcus oligofermentans belongs to a new three-domain family of bacterial flavoproteins

Includes: Supplementary data

Articles

Why are the 2-oxoacid dehydrogenase complexes so large? Generation of an active trimeric complex

Nia L. Marrott, Jacqueline J. T. Marshall, Dmitri I. Svergun, Susan J. Crennell, David W. Hough, Jean M. H. van den Elsen, Michael J. Danson

Biochem J (2014) 463 (3): 405–412.

https://doi.org/10.1042/BJ20140359

Published: 10 October 2014

... the same 2-oxoacid decarboxylations. archaea macromolecular assembly multienzyme complex 2-oxoacid dehydrogenase thermophile X-ray crystallography Using the Stratagene QuikChange® site-directed mutagenesis protocol, the five C-terminal amino acids of the T. acidophilum E2 were...

View article titled, Why are the 2-oxoacid dehydrogenase complexes so large? Generation of an active trimeric complex

Articles

Insights into substrate binding and catalysis in bacterial type I dehydroquinase

María Maneiro, Antonio Peón, Emilio Lence, José M. Otero, Mark J. Van Raaij, Paul Thompson, Alastair R. Hawkins, Concepción González-Bello

Biochem J (2014) 462 (3): 415–424.

https://doi.org/10.1042/BJ20140614

Published: 22 August 2014

... mechanism MD simulation Salmonella typhi X-ray crystallography The disruption of the bacterial growth cycle by preventing the synthesis and assembly of key components involved in bacterial processes has proven to be a successful strategy for the development of novel antibacterial drugs [ 1 – 3...

View article titled, Insights into substrate binding and catalysis in bacterial type I dehydroquinase

Articles

Structures of bacterial kynurenine formamidase reveal a crowded binuclear zinc catalytic site primed to generate a potent nucleophile

Laura Díaz-Sáez, Velupillai Srikannathasan, Martin Zoltner, William N. Hunter

Biochem J (2014) 462 (3): 581–589.

https://doi.org/10.1042/BJ20140511

Published: 22 August 2014

... is proposed. amidase binuclear metal site kynurenine formamidase tryptophan catabolism X-ray crystallography zinc enzyme Tryptophan catabolism via the kynurenine pathway supports the biosynthesis of NAD + , important neuroactive intermediates in eukaryotes, then anthranilate, quinolate...

View article titled, Structures of bacterial kynurenine formamidase reveal a crowded binuclear zinc catalytic site primed to generate a potent nucleophile

Articles

Structural insights into the substrate-binding mechanism for a novel chitosanase

Qianqian Lyu, Song Wang, Wenhua Xu, Baoqin Han, Wanshun Liu, David N. M. Jones, Weizhi Liu

Biochem J (2014) 461 (2): 335–345.

https://doi.org/10.1042/BJ20140159

Published: 26 June 2014

... differential scanning fluorimetry (DSF) glycoside hydrolyase X-ray crystallography Chitosan is a polycationic saccharide and previous studies have demonstrated that the chito-oligomer derived from chitosan has a variety of bioactivities, including antimicrobial [ 1 ], antioxidant [ 2 ] and inhibition...

View article titled, Structural insights into the substrate-binding mechanism for a novel chitosanase

Articles

A dual conformation of the post-decarboxylation intermediate is associated with distinct enzyme states in mycobacterial KGD (α-ketoglutarate decarboxylase)

Tristan Wagner, Nathalie Barilone, Pedro M. Alzari, Marco Bellinzoni

Biochem J (2014) 457 (3): 425–434.

https://doi.org/10.1042/BJ20131142

Published: 10 January 2014

... conformations and concerted large-scale motions along the catalytic cycle, which may exemplify a trait of E1o enzymes. bacterial metabolism decarboxylase dehydrogenase enzyme catalysis Mycobacterium protein dynamics X-ray crystallography As the rate-limiting enzymes in these huge multi-enzyme...

View article titled, A dual conformation of the post-decarboxylation intermediate is associated with distinct enzyme states in mycobacterial KGD (α-ketoglutarate decarboxylase)

Includes: Supplementary data

Articles

Mercury increases water permeability of a plant aquaporin through a non-cysteine-related mechanism

Anna Frick, Michael Järvå, Mikael Ekvall, Povilas Uzdavinys, Maria Nyblom, Susanna Törnroth-Horsefield

Biochem J (2013) 454 (3): 491–499.

https://doi.org/10.1042/BJ20130377

Published: 29 August 2013

...-ray crystallography Water flow across cellular membranes is a fundamental process of all living cells and is mediated by a highly conserved family of integral membrane proteins known as AQPs (aquaporins). AQPs are tetramers with each protomer functioning as an individual channel, consisting...

View article titled, Mercury increases water permeability of a plant aquaporin through a non-cysteine-related mechanism

Includes: Supplementary data

Articles

Structural basis for phosphorylation-triggered autophagic clearance of Salmonella

Vladimir V. Rogov, Hironori Suzuki, Evgenij Fiskin, Philipp Wild, Andreas Kniss, Alexis Rozenknop, Ryuichi Kato, Masato Kawasaki, David G. McEwan, Frank Löhr, Peter Güntert, Ivan Dikic, Soichi Wakatsuki, Volker Dötsch

Biochem J (2013) 454 (3): 459–466.

https://doi.org/10.1042/BJ20121907

Published: 29 August 2013

... protein light chain 3 beta (LC3) NMR spectroscopy optineurin protein–protein interaction selective autophagy X-ray crystallography For GST pull downs using cell lysates HEK (human embryonic kidney)-293T cells were transfected with expression constructs encoding the protein of interest using...

View article titled, Structural basis for phosphorylation-triggered autophagic clearance of Salmonella

Includes: Supplementary data

Articles

With an antibody whose duty's double, a step towards ending asthma trouble?

Eric J. Sundberg

Biochem J (2013) 451 (2): e1–e3.

https://doi.org/10.1042/BJ20130305

Published: 28 March 2013

...- and IL-13-mediated inflammatory responses to generate a novel antibody to the third ectodomain (D3) of IL-13Rα1 (IL-13 receptor α1), which forms a requisite binding site for both interleukins. This antibody potently neutralizes both IL-4 and IL-13 activities in vitro . Using X-ray crystallography...

View article titled, With an antibody whose duty's double, a step towards ending asthma trouble?

Articles

Structure of Plasmodium falciparum TRAP (thrombospondin-related anonymous protein) A domain highlights distinct features in apicomplexan von Willebrand factor A homologues

Tero Pihlajamaa, Tommi Kajander, Juho Knuuti, Kaisa Horkka, Amit Sharma, Perttu Permi

Biochem J (2013) 450 (3): 469–476.

https://doi.org/10.1042/BJ20121058

Published: 28 February 2013

..., stopping reaction with 0.33 M NaOH and measuring absorbance at 405 nm. cell binding malaria nuclear magnetic resonance (NMR) thrombospondin-related anonymous protein (TRAP) von Willebrand factor A (vWA) X-ray crystallography In conclusion, the PfTRAP-A crystal structure reveals novel aspects...

View article titled, Structure of Plasmodium falciparum TRAP (thrombospondin-related anonymous protein) A domain highlights distinct features in apicomplexan von Willebrand factor A homologues

Includes: Supplementary data

Articles

Characterization of Staphylococcus aureus EssB, an integral membrane component of the Type VII secretion system: atomic resolution crystal structure of the cytoplasmic segment

Martin Zoltner, Paul K. Fyfe, Tracy Palmer, William N. Hunter

Biochem J (2013) 449 (2): 469–477.

https://doi.org/10.1042/BJ20121209

Published: 14 December 2012

... secretion pseudokinase X-ray crystallography © 2013 The Authors 2013 This is an open-access article distributed under the terms of the Creative Commons Attribution Non-Commercial Licence ( http://creativecommons.org/licenses/by-nc/2.5/ ) which permits unrestricted non-commercial use, distribution...

View article titled, Characterization of Staphylococcus aureus EssB, an integral membrane component of the Type VII secretion system: atomic resolution crystal structure of the cytoplasmic segment

Includes: Supplementary data

Articles

Post-translational modification in the archaea: structural characterization of multi-enzyme complex lipoylation

Mareike G. Posner, Abhishek Upadhyay, Susan J. Crennell, Andrew J. A. Watson, Steve Dorus, Michael J. Danson, Stefan Bagby

Biochem J (2013) 449 (2): 415–425.

https://doi.org/10.1042/BJ20121150

Published: 14 December 2012

... the active sites of E1, E2 and E3. In the GCS, LA is attached to a lysine of the H protein that is structurally homologous with E2lipD. binding-induced folding lipoate protein ligase lipoyl domain NMR spectroscopy protein–protein interaction X-ray crystallography In Escherichia coli , E2lipD...

View article titled, Post-translational modification in the archaea: structural characterization of multi-enzyme complex lipoylation

Articles

Erlotinib binds both inactive and active conformations of the EGFR tyrosine kinase domain

Jin H. Park, Yingting Liu, Mark A. Lemmon, Ravi Radhakrishnan

Biochem J (2012) 448 (3): 417–423.

https://doi.org/10.1042/BJ20121513

Published: 21 November 2012

... ). cancer epidermal growth factor receptor (EGFR) erlotinib gefitinib inhibitor molecular dynamics receptor tyrosine kinase (RTK) X-ray crystallography Activating mutations in the EGFR (epidermal growth factor receptor) are now well accepted as oncogenic drivers in such cancers as NSCLC (non...

View article titled, Erlotinib binds both inactive and active conformations of the EGFR tyrosine kinase domain

Includes: Supplementary data

Articles

Assessing the range of kinase autoinhibition mechanisms in the insulin receptor family

Stephen C. Artim, Jeannine M. Mendrola, Mark A. Lemmon

Biochem J (2012) 448 (2): 213–220.

https://doi.org/10.1042/BJ20121365

Published: 07 November 2012

... the original work is properly cited. autoinhibition insulin receptor kinase receptor tyrosine kinase (RTK) receptor tyrosine kinase-like orphan receptor 2 (Ror2) tropomyosin receptor kinase A (TrkA) X-ray crystallography Recent clinical success with targeted inhibitors of the kinases EGFR...

View article titled, Assessing the range of kinase autoinhibition mechanisms in the insulin receptor family

Articles

Structural and functional characterization of Rpn12 identifies residues required for Rpn10 proteasome incorporation

Jonas Boehringer, Christiane Riedinger, Konstantinos Paraskevopoulos, Eachan O. D. Johnson, Edward D. Lowe, Christina Khoudian, Dominique Smith, Martin E. M. Noble, Colin Gordon, Jane A. Endicott

Biochem J (2012) 448 (1): 55–65.

https://doi.org/10.1042/BJ20120542

Published: 18 October 2012

... and identifies potential sites through which Rpn12 might form protein–protein interactions. We demonstrate that mutating residues at one of these sites impairs Rpn12 binding to Rpn10 in vitro and reduces Rpn10 incorporation into proteasomes in vivo. PCI domain proteasome ubiquitin X-ray crystallography...

View article titled, Structural and functional characterization of Rpn12 identifies residues required for Rpn10 proteasome incorporation

Includes: Supplementary data

Articles

Structure–function relationships in calpains

Robert L. Campbell, Peter L. Davies

Biochem J (2012) 447 (3): 335–351.

https://doi.org/10.1042/BJ20120921

Published: 05 October 2012

... 2012 calcium-binding domain structure enzyme activation inhibitor complex proteinase proteolysis X-ray crystallography The present review will focus on insights about calpains and their functioning that have largely been derived from recombinant protein approaches, calpain crystal...

View article titled, Structure–function relationships in calpains

Includes: Multimedia, Supplementary data

Articles

Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide-binding properties

Marianne Schimpl, Christina L. Rush, Marie Betou, Ian M. Eggleston, Anneliese D. Recklies, Daan M. F. van Aalten

Biochem J (2012) 446 (1): 149–157.

https://doi.org/10.1042/BJ20120377

Published: 27 July 2012

...-driven pathologies, and consequently inhibition of enzymatic activity has been considered as a therapeutic strategy for allergic inflammation and asthma [ 8 – 10 ]. chitinase chitinase-like proteins glycan glycan array glycobiology protein structure lectin X-ray crystallography Along...

View article titled, Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide-binding properties

Articles

The light intensity under which cells are grown controls the type of peripheral light-harvesting complexes that are assembled in a purple photosynthetic bacterium

Tatas H. P. Brotosudarmo, Aaron M. Collins, Andrew Gall, Aleksander W. Roszak, Alastair T. Gardiner, Robert E. Blankenship, Richard J. Cogdell

Biochem J (2011) 440 (1): 51–61.

https://doi.org/10.1042/BJ20110575

Published: 27 October 2011

... 7 2011 © The Authors Journal compilation © 2011 Biochemical Society 2011 bacteriochlorophyll light-harvesting complex puc gene purple photosynthetic bacterium Rhodopseudomonas palustris X-ray crystallography In some species of purple bacteria, such as Rps. acidophila...

View article titled, The light intensity under which cells are grown controls the type of peripheral light-harvesting complexes that are assembled in a purple photosynthetic bacterium

Includes: Supplementary data

Articles

The structure of a Burkholderia pseudomallei immunophilin–inhibitor complex reveals new approaches to antimicrobial development

Isobel H. Norville, Katherine O'Shea, Mitali Sarkar-Tyson, Suxin Zheng, Richard W. Titball, Gabriele Varani, Nicholas J. Harmer

Biochem J (2011) 437 (3): 413–422.

https://doi.org/10.1042/BJ20110345

Published: 13 July 2011

... isomerase activity and are inhibited by drugs including rapamycin and tacrolimus. We determined the structure of the Mip homologue [BpML1 ( Burkholderia pseudomallei Mip-like protein 1)] from the human pathogen and biowarfare threat B. pseudomallei by NMR and X-ray crystallography. The crystal structure...

View article titled, The structure of a Burkholderia pseudomallei immunophilin–inhibitor complex reveals new approaches to antimicrobial development

Includes: Supplementary data

Articles

Structural investigation of myo -inositol dehydrogenase from Bacillus subtilis : implications for catalytic mechanism and inositol dehydrogenase subfamily classification

Karin E. van Straaten, Hongyan Zheng, David R. J. Palmer, David A. R. Sanders

Biochem J (2010) 432 (2): 237–247.

https://doi.org/10.1042/BJ20101079

Published: 12 November 2010

... Journal compilation © 2010 Biochemical Society 2010 Bacillus subtilis inositol dehydrogenase myo inositol dehydrogenase site-directed mutagenesis structural classification X-ray crystallography myo -Inositol is ubiquitous in soil and plants. Inositol derivatives and isomers...

View article titled, Structural investigation of myo -inositol dehydrogenase from Bacillus subtilis : implications for catalytic mechanism and inositol dehydrogenase subfamily classification

Includes: Supplementary data

Articles

Characterization of domain-selective inhibitor binding in angiotensin-converting enzyme using a novel derivative of lisinopril

Jean M. Watermeyer, Wendy L. Kröger, Hester G. O'Neill, B. Trevor Sewell, Edward D. Sturrock

Biochem J (2010) 428 (1): 67–74.

https://doi.org/10.1042/BJ20100056

Published: 28 April 2010

... comprises two homologous domains, the differing substrate preferences of which present a new avenue for domain-selective inhibitor design. We have co-crystallized lisW-S, a C-domain-selective derivative of the drug lisinopril, with human testis ACE and determined a structure using X-ray crystallography...

View article titled, Characterization of domain-selective inhibitor binding in angiotensin-converting enzyme using a novel derivative of lisinopril

Includes: Supplementary data

Articles

Structural insights into the catalytic mechanism of Trypanosoma cruzi GPXI (glutathione peroxidase-like enzyme I)

Shreenal Patel, Syeed Hussain, Richard Harris, Sunita Sardiwal, John M. Kelly, Shane R. Wilkinson, Paul C. Driscoll, Snezana Djordjevic

Biochem J (2010) 425 (3): 513–522.

https://doi.org/10.1042/BJ20091167

Published: 15 January 2010

... identifying surfaces that could be targeted with drug-like molecules to block the protein function. Chagas disease enzyme mechanism NMR spectroscopy peroxidase X-ray crystallography Structure refinement was carried out using the maximum-likelihood restrained method with simple scaling...

View article titled, Structural insights into the catalytic mechanism of Trypanosoma cruzi GPXI (glutathione peroxidase-like enzyme I)

Includes: Supplementary data

Articles

Mechanistic insights into Cu(I) cluster transfer between the chaperone CopZ and its cognate Cu(I)-transporting P-type ATPase, CopA

Chloe Singleton, Stephen Hearnshaw, Liang Zhou, Nick E. Le Brun, Andrew M. Hemmings

Biochem J (2009) 424 (3): 347–356.

https://doi.org/10.1042/BJ20091079

Published: 10 December 2009

... 2009 4 9 2009 14 9 2009 14 9 2009 © The Authors Journal compilation © 2009 Biochemical Society 2009 Bacillus subtilis copper cluster copper-mediated protein–protein interaction copper trafficking cysteine thiol X-ray crystallography 1 These authors...

View article titled, Mechanistic insights into Cu(I) cluster transfer between the chaperone CopZ and its cognate Cu(I)-transporting P-type ATPase, CopA

Includes: Supplementary data

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

..., leading to non-reactivatable enzyme [ 8 – 10 ]. 14 1 2009 2 4 2009 15 4 2009 15 4 2009 © The Authors Journal compilation © 2009 Biochemical Society 2009 aging butyrylcholinesterase kinetics oxime reactivation tabun analogues X-ray crystallography Human...

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

Articles

The presence of monoglucosylated N196-glycan is important for the structural stability of storage protein, arylphorin

Kyoung-Seok Ryu, Jie-Oh Lee, Taek Hun Kwon, Han-Ho Choi, Hong-Seog Park, Soo Kyung Hwang, Zee-Won Lee, Kyung-Bok Lee, Young Hyun Han, Yun-Seok Choi, Young Ho Jeon, Chaejoon Cheong, Soohyun Kim

Biochem J (2009) 421 (1): 87–96.

https://doi.org/10.1042/BJ20082170

Published: 12 June 2009

...-Hydroxyecdysone is the activated form of ecdysone and has been shown to be critical for the maturation of the arylphorin receptor in vivo and in vitro [ 19 ]. arylphorin ecdysone glycosylation protein stability protein structure X-ray crystallography Glycosylation is an important cellular...

View article titled, The presence of monoglucosylated N196-glycan is important for the structural stability of storage protein, arylphorin

Includes: Supplementary data

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

... of pure Af GNA1 and Hs GNA1 per litre of bacterial culture respectively. Aspergillus fumigatus inhibitor design kinetics mutagenesis protein structure UDP-GlcNAc biosynthesis X-ray crystallography Aspergillus fumigatus is a filamentous, cosmopolitan and ubiquitous saprophytic...

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

Articles

Effects of substitutions in the CXXC active-site motif of the extracytoplasmic thioredoxin ResA

Allison Lewin, Allister Crow, Christopher T. C. Hodson, Lars Hederstedt, Nick E. Le Brun

Biochem J (2008) 414 (1): 81–91.

https://doi.org/10.1042/BJ20080356

Published: 29 July 2008

...–disulfide oxidoreductase (TDOR) thioredoxin-like protein X-ray crystallography Thiol–disulfide oxidoreductases (TDORs) occur in most cell types, where they function in the control of the redox state of cysteine-residue side chains. Many TDORs are structurally highly related and contain the active...

View article titled, Effects of substitutions in the CXXC active-site motif of the extracytoplasmic thioredoxin ResA

Includes: Supplementary data

Articles

Structural and functional consequences of the replacement of proximal residues Cys 172 and Cys 192 in the large subunit of ribulose-1,5-bisphosphate carboxylase/oxygenase from Chlamydomonas reinhardtii

María-Jesús García-Murria, Saeid Karkehabadi, Julia Marín-Navarro, Sriram Satagopan, Inger Andersson, Robert J. Spreitzer, Joaquín Moreno

Biochem J (2008) 411 (2): 241–247.

https://doi.org/10.1042/BJ20071422

Published: 27 March 2008

... © The Authors Journal compilation © 2008 Biochemical Society 2008 Chlamydomonas reinhardtii chloroplast mutant proximal cysteine ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) specificity factor X-ray crystallography The bifunctional enzyme Rubisco (ribulose-1,5...

View article titled, Structural and functional consequences of the replacement of proximal residues Cys 172 and Cys 192 in the large subunit of ribulose-1,5-bisphosphate carboxylase/oxygenase from Chlamydomonas reinhardtii

Includes: Supplementary data

Articles

A conserved hydrogen-bond network in the catalytic centre of animal glutaminyl cyclases is critical for catalysis

Kai-Fa Huang, Yu-Ruei Wang, En-Cheng Chang, Tsung-Lin Chou, Andrew H.-J. Wang

Biochem J (2008) 411 (1): 181–190.

https://doi.org/10.1042/BJ20071073

Published: 13 March 2008

... (glutaminyl-peptide cyclotransferase QC) pyroglutamate (pGlu) hydrogen-bond network proton transfer site-directed mutagenesis synchrotron X-ray crystallography QCs (glutaminyl cyclases; glutaminyl-peptide cyclotransferases, EC 2.3.2.5) catalyse the conversion of protein N-terminal glutamine...

View article titled, A conserved hydrogen-bond network in the catalytic centre of animal glutaminyl cyclases is critical for catalysis

Includes: Supplementary data

Articles

Three-dimensional structure and ligand binding properties of trichosurin, a metatherian lipocalin from the milk whey of the common brushtail possum Trichosurus vulpecula

Randall P. Watson, Jerome Demmer, Edward N. Baker, Vickery L. Arcus

Biochem J (2007) 408 (1): 29–38.

https://doi.org/10.1042/BJ20070567

Published: 29 October 2007

... of trichosurin was solved by X-ray crystallography in two different crystal forms to 1.9 Å (1 Å=0.1 nm) and 2.6 Å resolution, from crystals grown at low and high pH values respectively. Trichosurin has the typical lipocalin fold, an eight-stranded anti-parallel β-barrel but dimerizes in an orientation that has...

View article titled, Three-dimensional structure and ligand binding properties of trichosurin, a metatherian lipocalin from the milk whey of the common brushtail possum Trichosurus vulpecula

Includes: Supplementary data

Articles

TAK1-binding protein 1 is a pseudophosphatase

Sarah H. Conner, Gursant Kular, Mark Peggie, Sharon Shepherd, Alexander W. Schüttelkopf, Philip Cohen, Daan M. F. Van Aalten

Biochem J (2006) 399 (3): 427–434.

https://doi.org/10.1042/BJ20061077

Published: 13 October 2006

... transforming growth factor-β-activated kinase 1-binding protein 1 (TAB1) transforming growth factor-β-activated kinase 1 (TAK1) pro-inflammatory cytokine X-ray crystallography TAK1 (transforming growth factor-β-activated kinase 1) is activated when cells are stimulated with bacterial LPS...

View article titled, TAK1-binding protein 1 is a pseudophosphatase

Articles

Structural basis for non-competitive product inhibition in human thymidine phosphorylase: implications for drug design

Kamel EL Omari, Annelies Bronckaers, Sandra Liekens, Maria-Jésus Pérez-Pérez, Jan Balzarini, David K. Stammers

Biochem J (2006) 399 (2): 199–204.

https://doi.org/10.1042/BJ20060513

Published: 27 September 2006

... Society, London 2006 angiogenesis human thymidine phosphorylase product inhibition pyrimidine nucleoside phosphorylase structure X-ray crystallography HTP (human thymidine phosphorylase; EC 2.4.2.4) belongs to the PYNP (pyrimidine nucleoside phosphorylase) family and catalyses...

View article titled, Structural basis for non-competitive product inhibition in human thymidine phosphorylase: implications for drug design

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