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Keywords: structure
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Biochem J (2021) 478 (19): 3613–3619.
Published: 08 October 2021
... is well established, the processes associated with methylation of non-histone proteins, particularly in the cytoplasm of the cell, are not well understood. Here, we describe a search for potential methyllysine readers using a rapid structural motif-mining algorithm Erebus , the PDB database, and knowledge...
Includes: Supplementary data
Biochem J (2020) 477 (24): 4769–4783.
Published: 24 December 2020
... either homodimerize or heterodimerize in vivo , we hypothesized that heterodimerization of APPL proteins might account for the mechanism. By solving the crystal structure of APPL1–APPL2 BAR-PH heterodimer, we find that the overall structure is crescent-shaped with a longer curvature radius of 76...
Includes: Supplementary data
Biochem J (2020) 477 (5): 905–923.
Published: 04 March 2020
...Sunil Singh; J. Sivaraman The HECT family of E3 ubiquitin ligase is divided into three subfamilies: the NEDD4, the HERC, and the ‘other’. Previous studies have mostly targeted members of the NEDD4 subfamily for structural and functional analysis. The UBE3C E3 ligase is a member of the ‘other...
Includes: Supplementary data
Biochem J (2019) 476 (7): 1037–1051.
Published: 04 April 2019
... of substrates, and CDC42 or Rac binding to the regulatory domain relieves this auto-inhibition allowing auto-phosphorylation on the KD activation loop. We have determined the crystal structure of the PAK3 catalytic domain and by small angle X-ray scattering, the solution-phase structures of full-length inactive...
Includes: Supplementary data
Biochem J (2018) 475 (19): 3123–3140.
Published: 12 October 2018
... regions of the lung, in a process that can become fatal. Here, we review structure and function of the main molecular actors of ECM degradation due to M. tuberculosis infection and the proposed mechanisms of tissue destruction, mainly attacking fibrillar collagen. Importantly, enzymes responsible...
Biochem J (2017) 474 (21): 3599–3613.
Published: 18 October 2017
... 2017 © 2017 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society 2017 complex endoglucanase mutarotase RNaseZ structure Protein–protein interactions (PPIs) are crucial to all biological processes. The identification of PPIs is a key step...
Includes: Supplementary data
Biochem J (2016) 473 (7): 827–838.
Published: 29 March 2016
...Sacha A. Jensen; Penny A. Handford The 10–12 nm diameter microfibrils of the extracellular matrix (ECM) impart both structural and regulatory properties to load-bearing connective tissues. The main protein component is the calcium-dependent glycoprotein fibrillin, which assembles into microfibrils...
Biochem J (2015) 467 (3): 365–386.
Published: 17 April 2015
... and structure of CRL complexes, and outline the current state of the field in terms of available knowledge of small-molecule inhibitors and modulators of CRL activity. A comprehensive overview of the reported crystal structures of CRL subunits, components and full-size complexes, alone or with bound small...
Includes: Supplementary data
Biochem J (2014) 458 (3): 421–437.
Published: 28 February 2014
... protein C-terminus) E3 ligase families, directly catalysing ubiquitin transfer from an intrinsic catalytic cysteine housed in the C-terminal domain, as well as recruiting thioester-bound E2 enzymes via a RING domain. Recent three-dimensional structures and biochemical findings of the RBRs have revealed...
Biochem J (2013) 450 (3): 487–496.
Published: 28 February 2013
... structure-based approach we identified for the first time amino acids critical for gp130 activation. We can show that gp130 D2–D3 interdomain connectivity by hydrophobic residues stabilizes inactive gp130 conformation. Conformational destabilization of the EF loop present in domain D2 and disruption of D2...
Includes: Supplementary data
Biochem J (2013) 449 (3): 581–594.
Published: 09 January 2013
...Romain A. Studer; Benoit H. Dessailly; Christine A. Orengo The present review focuses on the evolution of proteins and the impact of amino acid mutations on function from a structural perspective. Proteins evolve under the law of natural selection and undergo alternating periods of conservative...
Biochem J (2012) 445 (2): 167–174.
Published: 27 June 2012
...Benjamin W. Cook; Gary S. Shaw E2 conjugating enzymes are the central enzymes in the ubiquitination pathway and are responsible for the transfer of ubiquitin and ubiquitin-like proteins on to target substrates. The secondary structural elements of the catalytic domain of these enzymes is highly...
Includes: Supplementary data
Biochem J (2012) 441 (1): 95–104.
Published: 14 December 2011
... lignocellulosic biomass. However, industrial use of cellulases is somewhat limited by both their low catalytic efficiency and stability. In the present study, we conducted a detailed functional and structural characterization of the thermostable BsCel5A ( Bacillus subtilis cellulase 5A), which consists of a GH5...
Includes: Supplementary data
Biochem J (2009) 419 (2): 347–357.
Published: 27 March 2009
.... Understanding the structural properties of FMRP is essential for correlating it with its functions. The structures of isolated domains of FMRP have been reported, but nothing is yet known with regard to the spatial arrangement of the different modules, partly because of difficulties in producing both the full...
Includes: Supplementary data
Biochem J (2008) 414 (1): 63–71.
Published: 29 July 2008
... interactions of the microtubule-based cytoskeleton in neural development and function. The characteristic structural organization of mammalian MAP1s, which are composed of heavy- and light-chain subunits, requires proteolytic cleavage of a precursor polypeptide encoded by the corresponding map1 gene. MAP1...
Biochem J (2008) 413 (3): 369–387.
Published: 15 July 2008
.... The enzyme was discovered in 1959 and over the last decade there has been much progress in understanding its structure and function. PC from most organisms is a tetrameric protein that is allosterically regulated by acetyl-CoA and aspartate. High-resolution crystal structures of the holoenzyme with various...
Biochem J (2008) 412 (3): 469–475.
Published: 28 May 2008
..., cytoplasmic termini and a large ectodomain between the transmembrane domains; this topology has been confirmed by the crystal structure of chicken ASIC1. ASIC1a and ASIC1b are two variants encoded by the asic1 gene. The variable part of the protein includes the cytoplasmic N-terminus, the first transmembrane...
Biochem J (2006) 399 (2): 199–204.
Published: 27 September 2006
... is implicated in angiogenesis and apoptosis and therefore is a prime target for drug design, including antitumour therapies. An HTP structure in a closed conformation complexed with an inhibitor has previously been solved. Earlier kinetic studies revealed an ordered release of thymine followed by ribose...
Biochem J (2005) 390 (2): e1.
Published: 23 August 2005
... accessible to the general biochemist and we have thus witnessed an exponential increase in the number of protein structures deposited every year. It is now commonplace for several structures to be published of the same protein under different crystallization conditions, sometimes resulting in conflicting...
Biochem J (2005) 389 (1): 173–180.
Published: 21 June 2005
...Melinda DEMENDI; Noboru ISHIYAMA; Joseph S. LAM; Albert M. BERGHUIS; Carole CREUZENET WbpP is the only genuine UDP-GlcNAc (UDP- N -acetylglucosamine) C4 epimerase for which both biochemical and structural data are available. This represents a golden opportunity to elucidate the molecular basis...
Biochem J (2005) 385 (2): 427–432.
Published: 07 January 2005
.... In the present study we confirm, using R213G EC-SOD purified from a homozygous individual, that the heparin affinity is reduced. Significantly, the collagen affinity of the R213G EC-SOD variant was similarly affected and both the heparin and collagen affinities were reduced by 12-fold. Structural analysis...
Biochem J (2004) 379 (2): 263–272.
Published: 15 April 2004
... such studies is the lack of accurate three-dimensional structural models of these molecules. The CC-chemokine receptor D6 is expressed at exceptionally high levels in heterologous transfectants. Here we report the purification and biochemical characterization of milligram quantities of D6 protein from...
Biochem J (2004) 377 (3): 597–605.
Published: 01 February 2004
...Catherine L. DAY; Hamsa PUTHALAKATH; Gretchen SKEA; Andreas STRASSER; Igor BARSUKOV; Lu-Yun LIAN; David C. S. HUANG; Mark G. HINDS The dynein and myosin V motor complexes are multi-protein structures that function to transport molecules and organelles within the cell. DLC (dynein light-chain...
Biochem J (2003) 373 (1): 281–288.
Published: 01 July 2003
... a nascent β-sheet conformation in solution, the actual bioactive structure formed upon binding to its receptor on the surface of endothelial cells could be quite different. By using a series of double-cysteine disulphide-bridged analogues, we provide evidence in the present study that the β-sheet is in fact...
Biochem J (2003) 371 (2): 515–523.
Published: 15 April 2003
...Elmar JAENICKE; Heinz DECKER Tyrosinases, which are widely distributed among animals, plants and fungi, are involved in many biologically essential functions, including pigmentation, sclerotization, primary immune response and host defence. In the present study, we present a structural...
Biochem J (2001) 356 (1): 277–286.
Published: 08 May 2001
... that were dependent upon the nature of the cation present. Medium-range nuclear Overhauser effect (nOe) enhancements, characteristic of small structured regions in the peptide, were observed and also found to be cation dependent. The secondary structure of the peptide was characterized by sequential...
Biochem J (2001) 354 (3): 697–706.
Published: 08 March 2001
...@chem.rug.nl ). The nucleotide sequence data reported appear in DDBJ, EMBL and GenBank TM Nucleotide Sequence Databases under the accession number AJ238883. 19 6 2000 6 12 2000 12 1 2001 The Biochemical Society, London © 2001 2001 cGMP cloning chemotaxis mutant structure...
Biochem J (2001) 354 (2): 233–242.
Published: 22 February 2001
... is demonstrated in the sprout-formation assay and in vivo in the chick embryo chorio-allantoic membrane angiogenesis assay. Comparison of active and inactive βpep sequences allows structure–function relationships to be deduced. Five hydrophobic residues and two lysines appear to be crucial to activity...
Biochem J (2001) 354 (1): 141–147.
Published: 08 February 2001
...-derived oligosaccharides, suggest that specific structural features within the polysaccharide are responsible for ligand recognition and regulation. In the present study, we show that strong anion-exchange HPLC alone, a commonly used technique for purification of heparan sulphate-derived oligosaccharides...
Biochem J (2000) 351 (1): 79–86.
Published: 26 September 2000
...-1 expressed in T-cells. Function-blocking monoclonal antibodies that map to domain 2 of ICAM-1, implicating this domain in ligand binding, were found to act indirectly. In summary our data suggest that the second domain of ICAM-1 has a role in maintaining the structure of the LFA-1 ligand-binding...
Biochem J (1999) 343 (1): 177–183.
Published: 24 September 1999
... being further divided into six subfamilies. Moreover, the classification enables us to predict (1) important structural features such as residues forming the catalytic site or the presence of disulphide bonds, (2) types of secretion mechanism and requirement for lipase-specific foldases, and (3...