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1-27 of 27
Keywords: DNA binding
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Articles
Journal:
Biochemical Journal
Biochem J (2024) 481 (12): 805–821.
Published: 17 June 2024
... biosynthetic enzymes and pathway-specific regulators, notably AflR and AflS. While AflR, a DNA-binding protein, activates gene transcription within the cluster, AflS enhances AF production through mechanisms that are not fully understood. In this study, we developed protocols to purify recombinant AflR...
Includes: Supplementary data
Articles
Jasdeep Singh, Neha Quadir, Shubham Vashishtha, Ankan Chakraborty, Anwar Alam, Bishwajit Kundu, Uzair Ahmad, Durai Sundar, Nasreen Z. Ehtesham, Seyed E. Hasnain
Journal:
Biochemical Journal
Biochem J (2023) 480 (14): 1079–1096.
Published: 17 July 2023
... for Cyclosporine. Consequently, unrestrained MD simulations of PpiB–ligand conjugates were carried where Cα-RMSD and gyration radius (Rg) analysis showed absence of any major structural perturbations in presence of compounds (Cα-RMSD ∼ 0.3–0.4 nm and Rg ∼ 1.5 nm, Figure 3a ). AAA proteins DNA binding drug...
Includes: Supplementary data
Articles
Soumyananda Chakraborti, Dhanasekaran Balakrishnan, Alexander J. Trotter, William H. Gittens, Ally W.H. Yang, Arttu Jolma, Joy R. Paterson, Sylwia Świątek, Jacek Plewka, Fiona A. Curtis, Laura Y. Bowers, Lars-Olof Pålsson, Timothy R. Hughes, Michał Taube, Maciej Kozak, Jonathan G. Heddle, Gary J. Sharples
Journal:
Biochemical Journal
Biochem J (2020) 477 (7): 1345–1362.
Published: 17 April 2020
... reinforced the proposed similarity to Fis and supported the identification of residues involved in DNA binding which were demonstrated experimentally. Overexpression of NinH proved toxic and this correlated with its capacity to associate with DNA. NinH is the first example of a phage-encoded Fis-like NAP...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2019) 476 (21): 3261–3279.
Published: 11 November 2019
... the DNA binding activity of HpDnaB. Furthermore, overexpression of Hp0897 full-length protein in H. pylori leads to an elongated cell phenotype. While the overexpression of Hp0897CTD does not show a phenotype of cell elongation, overexpression of Hp0897NTD shows extensive cell elongation. These results...
Includes: Supplementary data
Articles
Venkatasubramanian Vidhyasagar, Yujiong He, Manhong Guo, Tanu Talwar, Ravi Shankar Singh, Manisha Yadav, George Katselis, Franco J. Vizeacoumar, Kiven E. Lukong, Yuliang Wu
Journal:
Biochemical Journal
Biochem J (2018) 475 (1): 45–60.
Published: 02 January 2018
... and hNABP2, indicating that INTS3 might regulate hNABP1/2's biological function, while the role of C9ORF80 remains unknown. Correspondence: Yuliang Wu ( [email protected] ) C9ORF80 DNA binding INTS3 NABP1 NABP2 RNA-binding proteins 9 5 2017 1 10 2017 14 11 2017 17...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2013) 456 (2): 275–282.
Published: 08 November 2013
... extensions that modulate DNA-binding properties. We report in the present paper that the lysine-rich C-terminal extension of M. smegmatis Ku contacts the core protein domain as evidenced by an increase in DNA-binding affinity and a decrease in thermal stability and intrinsic tryptophan fluorescence upon its...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2013) 449 (3): 707–717.
Published: 09 January 2013
... cognate) 70-interacting protein] and MDM2 (murine double minute 2), which dock to the Mf2 domain, was specific for lysine residues found predominantly in loop structures that extend from the DNA-binding domain, whereas no modification was detected in the more conformationally flexible C-terminal half...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2012) 443 (1): 39–47.
Published: 14 March 2012
...Ralf Jauch; Calista K. L. Ng; Kamesh Narasimhan; Prasanna R. Kolatkar It has recently been proposed that the sequence preferences of DNA-binding TFs (transcription factors) can be well described by models that include the positional interdependence of the nucleotides of the target sites...
Articles
Yu Qiu, Wen Zhang, Chen Zhao, Yan Wang, Weiwei Wang, Jiahai Zhang, Zhiyong Zhang, Guohong Li, Yunyu Shi, Xiaoming Tu, Jihui Wu
Journal:
Biochemical Journal
Biochem J (2012) 442 (3): 527–538.
Published: 24 February 2012
... or [email protected] ). 21 10 2011 12 12 2011 13 12 2011 13 12 2011 © The Authors Journal compilation © 2012 Biochemical Society 2012 DNA binding histone methylation nucleosome Pdp1 PWWP domain Schizosaccharomyces pombe Set9 Post-translational modification...
Includes: Supplementary data
Articles
Assia Merabet, Hellen Houlleberghs, Kate Maclagan, Ester Akanho, Tam T. T. Bui, Bruno Pagano, Alex F. Drake, Franca Fraternali, Penka V. Nikolova
Journal:
Biochemical Journal
Biochem J (2010) 427 (2): 225–236.
Published: 29 March 2010
... ‘hot spot’ mutations has been investigated using the double-mutant approach. The effects of these two mutants on the p53 hot spots in terms of thermal stability and DNA binding were evaluated. The results show that: (i) the p53 mutants H115N and S116M are thermally more stable than wild-type p53; (ii...
Includes: Multimedia, Supplementary data
Articles
Yulia Ilina, Ewa Sloma, Ewa Maciaszczyk-Dziubinska, Marian Novotny, Michael Thorsen, Robert Wysocki, Markus J. Tamás
Journal:
Biochemical Journal
Biochem J (2008) 415 (3): 467–475.
Published: 15 October 2008
... expression of ACR2 and ACR3 . We conclude that Yap8p and other yeast AP-1 proteins require distinct DNA-binding motifs to induce gene expression and propose that this fact contributed towards a separation of function between AP-1 proteins during evolution. 1 These authors contributed equally...
Includes: Supplementary data
Articles
Journal:
Biochemical Journal
Biochem J (2008) 412 (1): 57–63.
Published: 25 April 2008
... phosphoprotein and its biochemical function is closely associated with its ability to bind DNA in a sequence-specific manner and operate as a transcription factor. Using a competition assay, we investigated the effect of DNA topology on the DNA binding of human wild-type p53 protein. We prepared sets...
Articles
Journal:
Biochemical Journal
Biochem J (2007) 408 (3): 387–393.
Published: 28 November 2007
... is a novel telomeric DNA-binding protein that, in addition to its role in rRNA processing, might participate in telomere function. 1 To whom correspondence should be addressed (email [email protected] ). 20 7 2007 9 8 2007 5 9 2007 5 9 2007 © The Authors Journal compilation...
Articles
Journal:
Biochemical Journal
Biochem J (2005) 388 (3): 921–928.
Published: 07 June 2005
... metalloproteinase-12 (metalloelastase). YB-1 transrepression of both the minimal and matrix metalloproteinase-12 promoter reporter constructs is dependent on the AP-1 sequence. To identify new nuclear proteins that bind specifically to the AP-1 DNA-binding site, we devised a DNA-affinity-chromatography-based assay...
Articles
Journal:
Biochemical Journal
Biochem J (2004) 379 (3): 553–562.
Published: 01 May 2004
... at oriC , the origin of E. coli DNA replication. In eukaryotes, Cdc6 protein may play a similar role in the DNA helicase loading in the replication fork during replication initiation at the origin. We have analysed the DNA-binding properties of DnaC protein and a quantitative analysis of the nucleotide...
Articles
Tae-Yeong CHOI, S. Young PARK, Ho-Sung KANG, Jae-Hun CHEONG, Han-Do KIM, Bok Luel LEE, Fumiko HIROSE, Masamitsu YAMAGUCHI, Mi-Ae YOO
Journal:
Biochemical Journal
Biochem J (2004) 378 (3): 833–838.
Published: 15 March 2004
... genes. Both DNA binding and dimer formation activities are associated with residues 16–115 of the N-terminal region. However, the mechanisms by which DREF dimerization and DNA binding are regulated remain unknown. Here, we report that the DNA binding activity of DREF is regulated by a redox mechanism...
Articles
Šárka POSPÍŠILOVÁ, Václav BRÁZDA, Kateřina KUCHAŘÍKOVÁ, M. Gloria LUCIANI, Ted R. HUPP, Petr SKLÁDAL, Emil PALEČEK, Bořivoj VOJTĚŠEK
Journal:
Biochemical Journal
Biochem J (2004) 378 (3): 939–947.
Published: 15 March 2004
... in response to different cellular stress signals. The sequence-specific DNA-binding function of p53 protein can be activated by several different stimuli that modulate the C-terminal domain of this protein. The predominant mechanism of activation of p53 sequence-specific DNA binding is phosphorylation...
Articles
Journal:
Biochemical Journal
Biochem J (2002) 366 (1): 315–322.
Published: 15 August 2002
...José A. HERNÁNDEZ; M. Teresa BES; María F. FILLAT; José L. NEIRA; M. Luisa PELEATO Fur (ferric uptake regulator) protein is a DNA-binding protein which regulates iron-responsive genes. Recombinant Fur from the nitrogen-fixing cyanobacterium Anabaena PCC 7119 has been purified and characterized...
Articles
Journal:
Biochemical Journal
Biochem J (2002) 362 (1): 41–50.
Published: 08 February 2002
... membrane cardiovascular DNA binding extracellular matrix transcription Abbreviations used: AP-2, activator protein 2; EMSA, electrophoretic mobility-shift assay. Biochem. J. (2002) 362, 41 50 (Printed in Great Britain) 41 Structural and functional characterization of the human and mouse...
Articles
Journal:
Biochemical Journal
Biochem J (2002) 361 (1): 87–95.
Published: 17 December 2001
...- merization. Key words: DNA binding, electron microscopy, MutS ATPase, native gel electrophoresis. nucleotide where MutH is bound [11,12]. However, using the human MSH2 MSH6 complex a molecular-switch model has been proposed (where MSH corresponds to eukaryotic MutS homologues). The hydrolysis of ATP...
Articles
Anja KRIPPNER-HEIDENREICH, Robert V. TALANIAN, Renate SEKUL, Regine KRAFT, Hubert THOLE, Holger OTTLEBEN, Bernhard LÜSCHER
Journal:
Biochemical Journal
Biochem J (2001) 358 (3): 705–715.
Published: 10 September 2001
... only with full-length, DNA-binding competent Max protein but not with corresponding peptides, suggesting that structural determinants might be important for this activity. Furthermore, cleavage by caspase-5 is inhibited by the protein kinase CK2-mediated phosphorylation of Max at Ser-11, a previously...
Articles
Journal:
Biochemical Journal
Biochem J (2001) 354 (2): 301–308.
Published: 22 February 2001
... is inhibited in the enterocytic Caco-2 clone TC7 by okadaic acid at a concentration that is known to inhibit protein phosphatases 1/2A and that does not affect cell viability. At the same concentration, phosphorylation of the HNF1α and HNF1β isoforms is greatly enhanced and their DNA-binding capacity...
Articles
Journal:
Biochemical Journal
Biochem J (2000) 347 (3): 881–886.
Published: 25 April 2000
... aquaticus ( Taq ) MutS protein in solution. Analytical gel filtration and cross-linking of MutS protein with disuccinimidyl suburate suggest that Taq MutS is a dimer in the presence of ATP. ATP binding and hydrolysis by Taq MutS reduces the heteroduplex-DNA binding by the protein. Using limited proteolysis...
Articles
Serge HAAN, Marcin KORTYLEWSKI, Iris BEHRMANN, Werner MÜLLER-ESTERL, Peter C. HEINRICH, Fred SCHAPER
Journal:
Biochemical Journal
Biochem J (2000) 345 (3): 417–421.
Published: 25 January 2000
... into the nucleus. We provide evidence that the event of STAT activation is more complex than previously assumed. Key words: DNA binding, HepG2 hepatoma cells, interleukin- 6, A375 melanoma cells, nuclear translocation. Here we show that STATs form stable complexes in hepatoma and melanoma cells before stimulation...
Articles
Journal:
Biochemical Journal
Biochem J (1999) 344 (1): 85–92.
Published: 08 November 1999
... as a model for a universal inhibitor of the superfamily of DNA polymerases. 1 To whom correspondence should be addressed (e-mail: [email protected]). 28 5 1999 3 8 1999 31 8 1999 The Biochemical Society, London © 1999 1999 DNA binding polycitrin A reverse...
Articles
Gianluca TELL, Lucia PELLIZZARI, Gennaro ESPOSITO, Carlo PUCILLO, Paolo Emidio MACCHIA, Roberto DI LAURO, Giuseppe DAMANTE
Journal:
Biochemical Journal
Biochem J (1999) 341 (1): 89–93.
Published: 24 June 1999
... 2 1999 12 3 1999 20 4 1999 The Biochemical Society, London © 1999 1999 DNA binding human mutation induced fit Pax genes protein structure Biochem. J. (1999) 341, 89 93 (Printed in Great Britain) 89 Structural defects of a Pax8 mutant that give rise to congenital...
Articles
Journal:
Biochemical Journal
Biochem J (1999) 337 (2): 253–262.
Published: 08 January 1999
... accounting for a sort of chronology of events during DNA binding. Since the RED subdomain is much more variable than the PAI subdomain among Pax proteins, these results could explain how distinct Pax proteins may select different target genes. 1 These authors have contributed equally to the work...
