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Proteomic analysis identifies ZMYM2 as endogenous binding partner of TBX18 protein in 293 and A549 cells

Timo H.-W. Lüdtke, Marc-Jens Kleppa, Reginaldo Rivera-Reyes, Fairouz Qasrawi, Dervla M. Connaughton, Shirlee Shril, Friedhelm Hildebrandt, Andreas Kispert

Biochem J (2022) 479 (1): 91–109.

https://doi.org/10.1042/BCJ20210642

Published: 14 January 2022

...Timo H.-W. Lüdtke; Marc-Jens Kleppa; Reginaldo Rivera-Reyes; Fairouz Qasrawi; Dervla M. Connaughton; Shirlee Shril; Friedhelm Hildebrandt; Andreas Kispert The TBX18 transcription factor regulates patterning and differentiation programs in the primordia of many organs yet the molecular complexes...

View articletitled, Proteomic analysis identifies ZMYM2 as endogenous binding partner of TBX18 protein in 293 and A549 cells

Includes: Supplementary data

Articles

Genetic activity during early plant embryogenesis

Ran Tian, Priyanka Paul, Sanjay Joshi, Sharyn E. Perry

Biochem J (2020) 477 (19): 3743–3767.

https://doi.org/10.1042/BCJ20190161

Published: 12 October 2020

... and regeneration strategy to increase desirable genotypes, to develop new genetically modified plants to meet agricultural challenges, and at a basic science level, to test gene function. We briefly review some of the transcription factors (TFs) involved in establishing primary and apical meristems during zygotic...

View articletitled, Genetic activity during early plant embryogenesis

Includes: Supplementary data

Articles

GLI1/GLI2 functional interplay is required to control Hedgehog/GLI targets gene expression

Biochem J (2020) 477 (17): 3131–3145.

https://doi.org/10.1042/BCJ20200335

Published: 04 September 2020

...; Mert Erkan; Paola A. Romecin-Duran; Alejandro Sarabia Gonzalez; Bo Zhou; Delphine Javelaud; Veronique Marsaud; Rondell P. Graham; Alain Mauviel; Sherine F. Elsawa; Martin E. Fernandez-Zapico The Hedgehog-regulated transcription factors GLI1 and GLI2 play overlapping roles in development and disease...

View articletitled, GLI1/GLI2 functional interplay is required to control Hedgehog/GLI targets gene expression

Includes: Supplementary data

Articles

E2F and GATA switches turn off WD repeat domain 77 expression in differentiating cells

Min Yu, Ulrica Wang, Zhengxin Wang

Biochem J (2016) 473 (15): 2331–2343.

https://doi.org/10.1042/BCJ20160130

Published: 28 July 2016

.../molecules that control WDR77 gene expression are unknown. Promoter mapping, gel shift assay and ChIP revealed that the WDR77 promoter contains bona fide response elements for E2F and GATA transcriptional factors as demonstrated in prostate cancer, lung cancer and erythroid cells, as well as in mouse lung...

View articletitled, E2F and GATA switches turn off WD repeat domain 77 expression in differentiating cells

Includes: Supplementary data

Articles

miRNA let-7 expression is regulated by glucose and TNF-α by a remote upstream promoter

Mutsumi Katayama, Rasmus J.O. Sjögren, Brendan Egan, Anna Krook

Biochem J (2015) 472 (2): 147–156.

https://doi.org/10.1042/BJ20150224

Published: 13 November 2015

... expression microRNA (micro ribonucleic acid) promoter regulation transcription factor type 2 diabetes miRNAs inversely regulate protein abundance and thereby control diverse regulatory aspects of numerous cellular processes in most cell types [ 1 ]. Changes in miRNA expression are linked...

View articletitled, miRNA let-7 expression is regulated by glucose and TNF-α by a remote upstream promoter

Articles

Transition metals activate TFEB in overexpressing cells

Karina A. Peña, Kirill Kiselyov

Biochem J (2015) 470 (1): 65–76.

https://doi.org/10.1042/BJ20140645

Published: 06 August 2015

..., autophagy, absorption from the cytoplasm and exocytosis. Transcription factor EB (TFEB) regulates lysosomal biogenesis and the expression of lysosomal proteins in response to lysosomal and/or metabolic stresses. Since transition metals cause lysosomal dysfunction, we proposed that TFEB may be activated...

View articletitled, Transition metals activate TFEB in overexpressing cells

Articles

A novel transcriptional regulator, Sll1130, negatively regulates heat-responsive genes in Synechocystis sp. PCC6803

Pilla Sankara Krishna, Balaga Radha Rani, M. Karthik Mohan, Iwane Suzuki, Sisinthy Shivaji, Jogadhenu S. S. Prakash

Biochem J (2013) 449 (3): 751–760.

https://doi.org/10.1042/BJ20120928

Published: 09 January 2013

...Pilla Sankara Krishna; Balaga Radha Rani; M. Karthik Mohan; Iwane Suzuki; Sisinthy Shivaji; Jogadhenu S. S. Prakash A conserved hypothetical protein, Sll1130, is a novel transcription factor that regulates the expression of major heat-responsive genes in Synechocystis sp. PCC6803. Synechocystis...

View articletitled, A novel transcriptional regulator, Sll1130, negatively regulates heat-responsive genes in Synechocystis sp. PCC6803

Includes: Supplementary data

Articles

The transcription factor AtDOF4.2 regulates shoot branching and seed coat formation in Arabidopsis

Hong-Feng Zou, Yu-Qin Zhang, Wei Wei, Hao-Wei Chen, Qing-Xin Song, Yun-Feng Liu, Ming-Yu Zhao, Fang Wang, Bao-Cai Zhang, Qing Lin, Wan-Ke Zhang, Biao Ma, Yi-Hua Zhou, Jin-Song Zhang, Shou-Yi Chen

Biochem J (2013) 449 (2): 373–388.

https://doi.org/10.1042/BJ20110060

Published: 14 December 2012

...Hong-Feng Zou; Yu-Qin Zhang; Wei Wei; Hao-Wei Chen; Qing-Xin Song; Yun-Feng Liu; Ming-Yu Zhao; Fang Wang; Bao-Cai Zhang; Qing Lin; Wan-Ke Zhang; Biao Ma; Yi-Hua Zhou; Jin-Song Zhang; Shou-Yi Chen Plant-specific DOF (DNA-binding with one finger)-type transcription factors regulate various biological...

View articletitled, The transcription factor AtDOF4.2 regulates shoot branching and seed coat formation in Arabidopsis

Includes: Supplementary data

Articles

DNA-dependent Oct4–Sox2 interaction and diffusion properties characteristic of the pluripotent cell state revealed by fluorescence spectroscopy

Chen Sok Lam, Tapan Kumar Mistri, Yong Hwee Foo, Thankiah Sudhaharan, Hui Theng Gan, David Rodda, Leng Hiong Lim, Chai Chou, Paul Robson, Thorsten Wohland, Sohail Ahmed

Biochem J (2012) 448 (1): 21–33.

https://doi.org/10.1042/BJ20120725

Published: 18 October 2012

...Chen Sok Lam; Tapan Kumar Mistri; Yong Hwee Foo; Thankiah Sudhaharan; Hui Theng Gan; David Rodda; Leng Hiong Lim; Chai Chou; Paul Robson; Thorsten Wohland; Sohail Ahmed Oct4 and Sox2 are two essential transcription factors that co-regulate target genes for the maintenance of pluripotency. However...

View articletitled, DNA-dependent Oct4–Sox2 interaction and diffusion properties characteristic of the pluripotent cell state revealed by fluorescence spectroscopy

Includes: Supplementary data

Articles

Selective STAT3-α or -β expression reveals spliceform-specific phosphorylation kinetics, nuclear retention and distinct gene expression outcomes

Ivan H. W. Ng, Dominic C. H. Ng, David A. Jans, Marie A. Bogoyevitch

Biochem J (2012) 447 (1): 125–136.

https://doi.org/10.1042/BJ20120941

Published: 12 September 2012

..., provided the original work is properly cited. cytokine interleukin-6 (IL-6) nucleocytoplasmic trafficking signal transducer and activator of transcription 3 (STAT3) transcription factor transcriptome analysis STAT3 (signal transducer and activator of transcription 3), initially...

View articletitled, Selective STAT3-α or -β expression reveals spliceform-specific phosphorylation kinetics, nuclear retention and distinct gene expression outcomes

Includes: Supplementary data

Articles

Upstream stimulatory factor 1 activates GATA5 expression through an E-box motif

Bohao Chen, Rona Hsu, Zhenping Li, Paul C. Kogut, Qingxia Du, Kelly Rouser, Blanca Camoretti-Mercado, Julian Solway

Biochem J (2012) 446 (1): 89–98.

https://doi.org/10.1042/BJ20111942

Published: 27 July 2012

... (electrophoretic mobility-shift analysis) and affinity chromatography, we found that USF1 specifically binds to the E-box sequence (5′-CACGTG-3′), but not to a mutated E-box. CpG methylation of this E-box significantly diminished its binding of transcription factors. Mutation of the E-box within a GATA5 promoter...

View articletitled, Upstream stimulatory factor 1 activates GATA5 expression through an E-box motif

Includes: Supplementary data

Articles

The MEKK1 SWIM domain is a novel substrate receptor for c-Jun ubiquitylation

Michael A. Rieger, Tyler Duellman, Christopher Hooper, Magdalene Ameka, Joanna C. Bakowska, Bruce D. Cuevas

Biochem J (2012) 445 (3): 431–439.

https://doi.org/10.1042/BJ20120406

Published: 13 July 2012

... known mammalian kinase that is also a ubiquitin ligase. MEKK1 contains a RING domain within its N-terminal regulatory region, and MEKK1 has been shown to ubiquitylate the AP-1 (activator protein 1) transcription factor protein c-Jun, but the mechanism by which MEKK1 interacts with c-Jun to induce...

View articletitled, The MEKK1 SWIM domain is a novel substrate receptor for c-Jun ubiquitylation

Includes: Supplementary data

Articles

DNA binding by the plant-specific NAC transcription factors in crystal and solution: a firm link to WRKY and GCM transcription factors

Ditte H. Welner, Søren Lindemose, J. Günter Grossmann, Niels Erik Møllegaard, Addie N. Olsen, Charlotte Helgstrand, Karen Skriver, Leila Lo Leggio

Biochem J (2012) 444 (3): 395–404.

https://doi.org/10.1042/BJ20111742

Published: 29 May 2012

...Ditte H. Welner; Søren Lindemose; J. Günter Grossmann; Niels Erik Møllegaard; Addie N. Olsen; Charlotte Helgstrand; Karen Skriver; Leila Lo Leggio NAC (NAM/ATAF/CUC) plant transcription factors regulate essential processes in development, stress responses and nutrient distribution in important crop...

View articletitled, DNA binding by the plant-specific NAC transcription factors in crystal and solution: a firm link to WRKY and GCM transcription factors

Includes: Multimedia, Supplementary data

Articles

The crystal structure of the Sox4 HMG domain–DNA complex suggests a mechanism for positional interdependence in DNA recognition

Ralf Jauch, Calista K. L. Ng, Kamesh Narasimhan, Prasanna R. Kolatkar

Biochem J (2012) 443 (1): 39–47.

https://doi.org/10.1042/BJ20111768

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...

View articletitled, The crystal structure of the Sox4 HMG domain–DNA complex suggests a mechanism for positional interdependence in DNA recognition

Articles

Transcriptional regulation mechanisms of hypoxia-induced neuroglobin gene expression

Ning Liu, Zhanyang Yu, Shuanglin Xiang, Song Zhao, Anna Tjärnlund-Wolf, Changhong Xing, Jian Zhang, Xiaoying Wang

Biochem J (2012) 443 (1): 153–164.

https://doi.org/10.1042/BJ20111856

Published: 14 March 2012

... of hypoxia. In the present study, we located the core proximal promoter of the mouse Ngb gene to a 554 bp segment, which harbours putative conserved NF-κB (nuclear factor κB)- and Egr1 (early growth-response factor 1) -binding sites. Overexpression and knockdown of transcription factors p65, p50, Egr1 or Sp1...

View articletitled, Transcriptional regulation mechanisms of hypoxia-induced neuroglobin gene expression

Articles

RCD1–DREB2A interaction in leaf senescence and stress responses in Arabidopsis thaliana

Julia P. Vainonen, Pinja Jaspers, Michael Wrzaczek, Airi Lamminmäki, Ramesha A. Reddy, Lauri Vaahtera, Mikael Brosché, Jaakko Kangasjärvi

Biochem J (2012) 442 (3): 573–581.

https://doi.org/10.1042/BJ20111739

Published: 24 February 2012

.... In recent years numerous transcription factors controlling various aspects of plant life have been identified. The activity of transcription factors needs to be regulated to prevent unspecific, prolonged or inappropriate responses. The transcription factor DREB2A (DEHYDRATION-RESPONSIVE ELEMENT BINDING 2A...

View articletitled, RCD1–DREB2A interaction in leaf senescence and stress responses in Arabidopsis thaliana

Includes: Supplementary data

Articles

Novel insights into the regulation of antioxidant-response-elementmediated gene expression by electrophiles: induction of the transcriptional repressor BACH1 by Nrf2

Henna-Kaisa Jyrkkänen, Suvi Kuosmanen, Merja Heinäniemi, Heidi Laitinen, Emilia Kansanen, Eero Mella-Aho, Hanna Leinonen, Seppo Ylä-Herttuala, Anna-Liisa Levonen

Biochem J (2011) 440 (2): 167–174.

https://doi.org/10.1042/BJ20110526

Published: 14 November 2011

... the ARE (antioxidant-response element), a cis -acting sequence present in the regulatory regions of genes involved in the detoxification and elimination of reactive oxidants and electrophiles. The ARE binds different bZIP (basic-region leucine zipper) transcription factors, most notably Nrf2 (nuclear factor-erythroid...

View articletitled, Novel insights into the regulation of antioxidant-response-elementmediated gene expression by electrophiles: induction of the transcriptional repressor BACH1 by Nrf2

Includes: Supplementary data

Articles

NFAT promotes carcinoma invasive migration through glypican-6

Gary K. Yiu, Aura Kaunisto, Y. Rebecca Chin, Alex Toker

Biochem J (2011) 440 (1): 157–166.

https://doi.org/10.1042/BJ20110530

Published: 27 October 2011

... the basement membrane. Several genes that are up-regulated in breast carcinoma are responsible for mediating the metastatic cascade. Recent studies have revealed that the NFAT (nuclear factor of activated T-cells) is a transcription factor that is highly expressed in aggressive breast cancer cells and tissues...

View articletitled, NFAT promotes carcinoma invasive migration through glypican-6

Includes: Supplementary data

Articles

The role of the protein kinase A pathway in the response to alkaline pH stress in yeast

Carlos Casado, Asier González, Maria Platara, Amparo Ruiz, Joaquín Ariño

Biochem J (2011) 438 (3): 523–533.

https://doi.org/10.1042/BJ20110607

Published: 26 August 2011

... pH causes rapid nuclear localization of the PKA-regulated Msn2 transcription factor which, together with Msn4, mediates a general stress response by binding with STRE (stress response element) sequences in many promoters. Consequently, a synthetic STRE–LacZ reporter shows a rapid induction...

View articletitled, The role of the protein kinase A pathway in the response to alkaline pH stress in yeast

Includes: Supplementary data

Articles

RANKL induces NFATc1 acetylation and stability via histone acetyltransferases during osteoclast differentiation

Jung Ha Kim, Kabsun Kim, Bang Ung Youn, Hye Mi Jin, Ji-Young Kim, Jang Bae Moon, Aeran Ko, Sang-Beom Seo, Kwang-Youl Lee, Nacksung Kim

Biochem J (2011) 436 (2): 253–262.

https://doi.org/10.1042/BJ20110062

Published: 13 May 2011

...Jung Ha Kim; Kabsun Kim; Bang Ung Youn; Hye Mi Jin; Ji-Young Kim; Jang Bae Moon; Aeran Ko; Sang-Beom Seo; Kwang-Youl Lee; Nacksung Kim NFATc1 (nuclear factor of activated T-cells c1), a key transcription factor, plays a role in regulating expression of osteoclast-specific downstream target genes...

View articletitled, RANKL induces NFATc1 acetylation and stability via histone acetyltransferases during osteoclast differentiation

Includes: Supplementary data

Articles

Transcriptional regulation of the intestinal luminal Na + and Cl − transporters

Jaleh Malakooti, Seema Saksena, Ravinder K. Gill, Pradeep K. Dudeja

Biochem J (2011) 435 (2): 313–325.

https://doi.org/10.1042/BJ20102062

Published: 29 March 2011

... transporters, involving transcriptional mechanisms and transcription factors that govern their basal regulation or dysregulation in diseased states, has only now started to unfold with the cloning and characterization of their gene promoters. The present review provides a detailed analysis of the core...

View articletitled, Transcriptional regulation of the intestinal luminal Na + and Cl − transporters

Articles

C68 from the Sulfolobus islandicus plasmid–virus pSSVx is a novel member of the AbrB-like transcription factor family

Patrizia Contursi, Katia D'Ambrosio, Luciano Pirone, Emilia Pedone, Tiziana Aucelli, Qunxin She, Giuseppina De Simone, Simonetta Bartolucci

Biochem J (2011) 435 (1): 157–166.

https://doi.org/10.1042/BJ20101334

Published: 15 March 2011

... derivative, shows that the protein assumes a swapped-hairpin fold, which is a distinctive fold associated with a family of prokaryotic transcription factors, such as AbrB from Bacillus subtilis . Nevertheless, C68 constitutes a novel representative of this family because it shows several peculiar structural...

View articletitled, C68 from the Sulfolobus islandicus plasmid–virus pSSVx is a novel member of the AbrB-like transcription factor family

Includes: Supplementary data

Articles

PMA-induced up-regulation of TBX3 is mediated by AP-1 and contributes to breast cancer cell migration

Shaheen Mowla, Romaney Pinnock, Virna D. Leaner, Colin R. Goding, Sharon Prince

Biochem J (2011) 433 (1): 145–153.

https://doi.org/10.1042/BJ20100886

Published: 15 December 2010

...Shaheen Mowla; Romaney Pinnock; Virna D. Leaner; Colin R. Goding; Sharon Prince The T-box transcription factor TBX3 provides an important link between embryonic development and cancer. TBX3 mediates limb, mammary gland and heart development and, in humans, mutations resulting in haplo-insufficiency...

View articletitled, PMA-induced up-regulation of TBX3 is mediated by AP-1 and contributes to breast cancer cell migration

Articles

Reflections on studies of gene expression in aneuploids

James A. Birchler

Biochem J (2010) 426 (2): 119–123.

https://doi.org/10.1042/BJ20091617

Published: 09 February 2010

... in transcription factors are usually associated with haplo-insufficiency phenotypes in humans [ 49 – 52 ] and Drosophila [ 53 – 57 ] would indicate that it is very likely that aneuploidy in these species would exhibit extensive trans-acting effects. Whereas it is true that some transcription factors present...

View articletitled, Reflections on studies of gene expression in aneuploids

Articles

Transcriptional and post-translational regulation of adiponectin

Meilian Liu, Feng Liu

Biochem J (2010) 425 (1): 41–52.

https://doi.org/10.1042/BJ20091045

Published: 14 December 2009

... ). 13 7 2009 14 8 2009 18 8 2009 © The Authors Journal compilation © 2010 Biochemical Society 2010 adiponectin Dsb endoplasmic reticulum stress inflammation insulin peroxisome-proliferator-activated receptor γ (PPARγ) transcription factor Adiponectin, a 30-kDa...

View articletitled, Transcriptional and post-translational regulation of adiponectin

Includes: Multimedia, Supplementary data

Articles

Snf1-related protein kinases (SnRKs) act within an intricate network that links metabolic and stress signalling in plants

Nigel G. Halford, Sandra J. Hey

Biochem J (2009) 419 (2): 247–259.

https://doi.org/10.1042/BJ20082408

Published: 27 March 2009

... to form networks in which key protein kinases, phosphatases and target transcription factors represent hubs on/from which multiple pathways converge and emerge. 1 To whom correspondence should be addressed (email [email protected] ). 19 12 2008 30 1 2009 2 2 2009 ©...

View articletitled, Snf1-related protein kinases (SnRKs) act within an intricate network that links metabolic and stress signalling in plants

Articles

Regulation of Jumonji-domain-containing histone demethylases by hypoxia-inducible factor (HIF)-1α

Patrick J. Pollard, Christoph Loenarz, David R. Mole, Michael A. McDonough, Jonathan M. Gleadle, Christopher J. Schofield, Peter J. Ratcliffe

Biochem J (2008) 416 (3): 387–394.

https://doi.org/10.1042/BJ20081238

Published: 26 November 2008

...Patrick J. Pollard; Christoph Loenarz; David R. Mole; Michael A. McDonough; Jonathan M. Gleadle; Christopher J. Schofield; Peter J. Ratcliffe The transcription factor HIF (hypoxia-inducible factor) mediates a highly pleiotrophic response to hypoxia. Many recent studies have focused on defining...

View articletitled, Regulation of Jumonji-domain-containing histone demethylases by hypoxia-inducible factor (HIF)-1α

Includes: Supplementary data

Articles

Two zinc finger transcription factors, CrzA and SltA, are involved in cation homoeostasis and detoxification in Aspergillus nidulans

Anja Spielvogel, Helen Findon, Herbert N. Arst, Jr, Lidia Araújo-Bazán, Patricia Hernández-Ortíz, Ulf Stahl, Vera Meyer, Eduardo A. Espeso

Biochem J (2008) 414 (3): 419–429.

https://doi.org/10.1042/BJ20080344

Published: 27 August 2008

...Anja Spielvogel; Helen Findon; Herbert N. Arst, Jr; Lidia Araújo-Bazán; Patricia Hernández-Ortíz; Ulf Stahl; Vera Meyer; Eduardo A. Espeso To investigate cation adaptation and homoeostasis in Aspergillus nidulans , two transcription-factor-encoding genes have been characterized. The A. nidulans...

View articletitled, Two zinc finger transcription factors, CrzA and SltA, are involved in cation homoeostasis and detoxification in Aspergillus nidulans

Includes: Supplementary data

Articles

The cross-talk between NF-κB and HIF-1: further evidence for a significant liaison

Agnes Görlach, Steve Bonello

Biochem J (2008) 412 (3): e17–e19.

https://doi.org/10.1042/BJ20080920

Published: 28 May 2008

... mechanism underlying these responses is the transcriptional regulation of HIF-1α by the redox-sensitive transcription factor NF-κB (nuclear factor κB), which binds at a distinct element in the proximal promoter of the HIF-1α gene. More recently, NF-κB binding to this site in the HIF-1α promoter has been...

View articletitled, The cross-talk between NF-κB and HIF-1: further evidence for a significant liaison

Articles

Lysophosphatidic acid-induced transactivation of epidermal growth factor receptor regulates cyclo-oxygenase-2 expression and prostaglandin E 2 release via C/EBPβ in human bronchial epithelial cells

Donghong He, Viswanathan Natarajan, Randi Stern, Irina A. Gorshkova, Julian Solway, Ernst Wm. Spannhake, Yutong Zhao

Biochem J (2008) 412 (1): 153–162.

https://doi.org/10.1042/BJ20071649

Published: 25 April 2008

...] in HBEpCs (human bronchial epithelial primary cells). The present study provides evidence that LPA-induced transactivation of EGFR regulates COX (cyclo-oxygenase)-2 expression and PGE 2 [PG (prostaglandin) E 2 ] release through the transcriptional factor, C/EBPβ (CCAAT/enhancer-binding protein β), in HBEpCs...

View articletitled, Lysophosphatidic acid-induced transactivation of epidermal growth factor receptor regulates cyclo-oxygenase-2 expression and prostaglandin E 2 release via C/EBPβ in human bronchial epithelial cells

Articles

Identification and function of phosphorylation in the glucose-regulated transcription factor ChREBP

Nikolas G. Tsatsos, Michael N. Davies, Brennon L. O'callaghan, Howard C. Towle

Biochem J (2008) 411 (2): 261–270.

https://doi.org/10.1042/BJ20071156

Published: 27 March 2008

.../leucine zipper transcription factor that regulates expression of these genes. To evaluate the potential role of ChREBP phosphorylation in its regulation, we used MS to identify modified residues. In the present paper, we report the detection of multiple phosphorylation sites of ChREBP expressed...

View articletitled, Identification and function of phosphorylation in the glucose-regulated transcription factor ChREBP

Includes: Supplementary data

Articles

MAPK-induced Ser 727 phosphorylation promotes SUMOylation of STAT1

Sari Vanhatupa, Daniela Ungureanu, Maija Paakkunainen, Olli Silvennoinen

Biochem J (2008) 409 (1): 179–185.

https://doi.org/10.1042/BJ20070620

Published: 11 December 2007

...) protein inhibitor of activated STAT1 (PIAS1) Ser 727 phosphorylation small ubiquitin-related modifier (SUMO) transcription factor IFN-γ (interferon-γ) has an important function in immune responses against microbes by regulating macrophage functions and Th1 differentiation. IFN-γ-induced gene...

View articletitled, MAPK-induced Ser 727 phosphorylation promotes SUMOylation of STAT1

Articles

STAT5 isoforms: controversies and clarifications

Haydeé L. Ramos, John J. O'Shea, Wendy T. Watford

Biochem J (2007) 404 (1): e1.

https://doi.org/10.1042/BJ2007420

Published: 26 April 2007

...Haydeé L. Ramos; John J. O'Shea; Wendy T. Watford STAT (signal transducer and activator of transcription) family transcription factors are critical regulators of the development and differentiation of many cell types. STAT isoforms are generated by alternative splicing, but have also been suggested...

View articletitled, STAT5 isoforms: controversies and clarifications

Articles

Evolutionary tinkering: birth of a novel chloroplast protein

Tatjana Kleine, Dario Leister

Biochem J (2007) 403 (3): e13–e14.

https://doi.org/10.1042/BJ20070312

Published: 12 April 2007

... genus Nicotiana : the conversion of a nuclear transcription factor into the plastid-resident protein WIN4 (wound-induced clone 4) involved in environmental stress responses. In this issue of the Biochemical Journal , Kodama and Sano now show that two steps are necessary for the establishment...

View articletitled, Evolutionary tinkering: birth of a novel chloroplast protein

Articles

STAT5 proteins are involved in down-regulation of iron regulatory protein 1 gene expression by nitric oxide

Rafal Radoslaw Starzynski, Ana Sofia Gonçalves, Françoise Muzeau, Zofia Tyrolczyk, Ewa Smuda, Jean-Claude Drapier, Carole Beaumont, Pawel Lipinski

Biochem J (2006) 400 (2): 367–375.

https://doi.org/10.1042/BJ20060623

Published: 14 November 2006

... revealed two conserved putative binding sites for transcription factor(s) regulated by NO and/or changes in intracellular iron level: Sp1 (promoter-selective transcription factor 1) and MTF1 (metal transcription factor 1), plus GAS (interferon-γ-activated sequence), a binding site for STAT (signal...

View articletitled, STAT5 proteins are involved in down-regulation of iron regulatory protein 1 gene expression by nitric oxide

Articles

NF-Y, AP2, Nrf1 and Sp1 regulate the fragile X-related gene 2 ( FXR2 )

Lata Mahishi, Karen Usdin

Biochem J (2006) 400 (2): 327–335.

https://doi.org/10.1042/BJ20060734

Published: 14 November 2006

... and showed that it also has bidirectional promoter activity in both neuronal and muscle cells as evidenced by luciferase reporter assay studies. Alignment of the human, mouse, rat, rabbit and dog promoters reveals several highly conserved transcription factor-binding sites. Gel electrophoretic mobility-shift...

View articletitled, NF-Y, AP2, Nrf1 and Sp1 regulate the fragile X-related gene 2 ( FXR2 )

Articles

In control of biology: of mice, men and Foxes

Patrick J. E. C. Wijchers, J. Peter H. Burbach, Marten P. Smidt

Biochem J (2006) 397 (2): 233–246.

https://doi.org/10.1042/BJ20060387

Published: 28 June 2006

...Patrick J. E. C. Wijchers; J. Peter H. Burbach; Marten P. Smidt Forkhead proteins comprise a highly conserved family of transcription factors, named after the original forkhead gene in Drosophila . To date, over 100 forkhead genes have been identified in a large variety of species, all sharing...

View articletitled, In control of biology: of mice, men and Foxes

Articles

Intracellular HIV-1 Tat protein represses constitutive LMP2 transcription increasing proteasome activity by interfering with the binding of IRF-1 to STAT1

Anna L. Remoli, Giulia Marsili, Edvige Perrotti, Eleonora Gallerani, Ramona Ilari, Filomena Nappi, Aurelio Cafaro, Barbara Ensoli, Riccardo Gavioli, Angela Battistini

Biochem J (2006) 396 (2): 371–380.

https://doi.org/10.1042/BJ20051570

Published: 15 May 2006

... regulation HIV-1 infection interferon-regulatory factor-1 (IRF-1) signal transducer and activator of transcription 1 (STAT1) Tat transcription factor The complex pathogenesis of AIDS and related syndromes involves factors that are able to also act on non-infected cells, and one such a factor...

View articletitled, Intracellular HIV-1 Tat protein represses constitutive LMP2 transcription increasing proteasome activity by interfering with the binding of IRF-1 to STAT1

Articles

TEF-1 and C/EBPβ are major p38α MAPK-regulated transcription factors in proliferating cardiomyocytes

Concetta Ambrosino, Tomoko Iwata, Claudio Scafoglio, Massimo Mallardo, Rüdiger Klein, Angel R. Nebreda

Biochem J (2006) 396 (1): 163–172.

https://doi.org/10.1042/BJ20051502

Published: 26 April 2006

... expression, and C/EBPβ (CCAAT/enhancer-binding protein β), as the two transcription factors the binding sites of which were most enriched in the promoters of p38α-regulated genes. We have focused on the study of the extracellular matrix component COL1A1 (α1 chain of type I collagen) and found evidence...

View articletitled, TEF-1 and C/EBPβ are major p38α MAPK-regulated transcription factors in proliferating cardiomyocytes

Includes: Supplementary data

Articles

Transcription of the sarcoplasmic/endoplasmic reticulum Ca 2+ -ATPase type 3 gene, ATP2A3 , is regulated by the calcineurin/NFAT pathway in endothelial cells

Lahouaria Hadri, Catherine Pavoine, Larissa Lipskaia, Sabrina Yacoubi, Anne-Marie Lompré

Biochem J (2006) 394 (1): 27–33.

https://doi.org/10.1042/BJ20051387

Published: 27 January 2006

... reticulum Ca 2+ -ATPase 3 (SERCA 3) specificity protein 1 (Sp1) transcription factor Total RNA was prepared using RNA NOW™ (Ozyme) and 1 μg was reverse-transcribed using a standard protocol. One-third of the resulting cDNA was amplified by 40 cycles of 30 s at 94 °C, 30 s at 60 °C and 30 s at 72...

View articletitled, Transcription of the sarcoplasmic/endoplasmic reticulum Ca 2+ -ATPase type 3 gene, ATP2A3 , is regulated by the calcineurin/NFAT pathway in endothelial cells

Articles

Lectin-like oxidized low-density lipoprotein receptor-1 (LOX-1) transcriptional regulation by Oct-1 in human endothelial cells: implications for atherosclerosis

Jiawei Chen, Yong Liu, Hongmei Liu, Paul L. Hermonat, Jawahar L. Mehta

Biochem J (2006) 393 (1): 255–265.

https://doi.org/10.1042/BJ20050845

Published: 12 December 2005

.... Within this 106 bp fragment, there is a potential binding motif for the transcription factor Oct-1 (octamer-1). By electrophoretic mobility-shift assay, we observed the activation of Oct-1 by ox-LDL. The critical role of Oct-1 in ox-LDL-induced LOX-1 promoter activation was further confirmed...

View articletitled, Lectin-like oxidized low-density lipoprotein receptor-1 (LOX-1) transcriptional regulation by Oct-1 in human endothelial cells: implications for atherosclerosis

Articles

The family feud: turning off Sp1 by Sp1-like KLF proteins

Gwen Lomberk, Raul Urrutia

Biochem J (2005) 392 (1): 1–11.

https://doi.org/10.1042/BJ20051234

Published: 08 November 2005

... transcription factors has been identified and characterized by the presence of a conserved DNA-binding domain comprising three Krüppel-like zinc fingers. Each distinct family member differs in its ability to regulate transcription, and, as a consequence, to influence cellular processes. Specific activation...

View articletitled, The family feud: turning off Sp1 by Sp1-like KLF proteins

Articles

Functional analysis of the promoter of the mitochondrial phosphate carrier human gene: identification of activator and repressor elements and their transcription factors

Vito Iacobazzi, Vittoria Infantino, Paola Costanzo, Paola Izzo, Ferdinando Palmieri

Biochem J (2005) 391 (3): 613–621.

https://doi.org/10.1042/BJ20050776

Published: 25 October 2005

.... These transcription factors were purified by DNA affinity, analysed by MS and identified as p54 nrb /NonO (nuclear RNA binding protein) and PSF (protein-associated splicing factor). The PiC silencer region cloned in front of the ferritin promoter conferred a strong inhibition to the heterologous promoter...

View articletitled, Functional analysis of the promoter of the mitochondrial phosphate carrier human gene: identification of activator and repressor elements and their transcription factors

Articles

Characterization of cis -regulatory elements of the vascular endothelial growth inhibitor gene promoter

Qingli XIAO, Chung Y. HSU, Hong CHEN, Xiucui MA, Jan XU, Jin-Moo LEE

Biochem J (2005) 388 (3): 913–920.

https://doi.org/10.1042/BJ20041739

Published: 07 June 2005

.... In addition, p65 overexpression enhanced, whereas p50 overexpression decreased, the luciferase activity. Furthermore, mutation of the NF-κB DNA binding site blocked this p65- and tumour necrosis factor-α-induced luciferase activity. These findings suggest that the transcription factor NF-κB plays an important...

View articletitled, Characterization of cis -regulatory elements of the vascular endothelial growth inhibitor gene promoter

Articles

Sp3 is involved in the regulation of SOCS3 gene expression

Christian EHLTING, Dieter HÄUSSINGER, Johannes G. BODE

Biochem J (2005) 387 (3): 737–745.

https://doi.org/10.1042/BJ20041101

Published: 26 April 2005

... and that Sp3 (specificity protein 3), a ubiquitously expressed transcription factor, but not Sp1 binds to this GC-rich motif, suggesting that Sp3 is involved in the regulation of SOCS3 expression. The results suggest that Sp3 is important for IL-6-induced transcriptional activation of the SOCS3 (gene) promoter...

View articletitled, Sp3 is involved in the regulation of SOCS3 gene expression

Articles

The expression of the human neuronal α3 Na + ,K + -ATPase subunit gene is regulated by the activity of the Sp1 and NF-Y transcription factors

Roberta BENFANTE, Ruth Adele ANTONINI, Monica VACCARI, Adriano FLORA, Fabian CHEN, Francesco CLEMENTI, Diego FORNASARI

Biochem J (2005) 386 (1): 63–72.

https://doi.org/10.1042/BJ20041294

Published: 08 February 2005

... transcription start site which is capable of preferentially driving the expression of a reporter gene in human neuronal cell lines. This region contains the cognate DNA sites for the transcription factors Sp1/3/4 (transcription factors 1/3/4 purified from S ephacryl and p hosphocellulose columns), NF-Y (nuclear...

View articletitled, The expression of the human neuronal α3 Na + ,K + -ATPase subunit gene is regulated by the activity of the Sp1 and NF-Y transcription factors

Includes: Supplementary data

Articles

Studies of SpoIIAB mutant proteins elucidate the mechanisms that regulate the developmental transcription factor σ F in Bacillus subtilis

Jwu-Ching SHU, Joanna CLARKSON, Michael D. YUDKIN

Biochem J (2004) 384 (1): 169–178.

https://doi.org/10.1042/BJ20040923

Published: 09 November 2004

... 2 8 2004 5 8 2004 5 8 2004 The Biochemical Society, London 2004 Bacillus subtilis differential gene expression fluorescence spectroscopy spoIIAB sporulation transcription factor Sporulation in Bacillus subtilis has become a paradigm for the study...

View articletitled, Studies of SpoIIAB mutant proteins elucidate the mechanisms that regulate the developmental transcription factor σ F in Bacillus subtilis

Includes: Supplementary data

Articles

Requirement of different mitochondrial targeting sequences of the yeast mitochondrial transcription factor Mtf1p when synthesized in alternative translation systems

Tapan K. BISWAS, Godfrey S. GETZ

Biochem J (2004) 383 (2): 383–391.

https://doi.org/10.1042/BJ20040691

Published: 08 October 2004

...Tapan K. BISWAS; Godfrey S. GETZ Mitochondrial (mt) translocation of the nuclearly encoded mt transcription factor Mtf1p appears to occur independent of a cleavable presequence, mt receptor, mt membrane potential or ATP [Biswas and Getz (2002) J. Biol. Chem. 277 , 45704–45714]. To understand...

View articletitled, Requirement of different mitochondrial targeting sequences of the yeast mitochondrial transcription factor Mtf1p when synthesized in alternative translation systems

Articles

cAMP-response element modulator-τ activates a distinct promoter element for the expression of the phospholipid hydroperoxide/sperm nucleus glutathione peroxidase gene

Federica TRAMER, Amedeo VETERE, Monica MARTINELLI, Federico PARONI, Eleonora MARSICH, Carla BOITANI, Gabriella SANDRI, Enrico PANFILI

Biochem J (2004) 383 (1): 179–185.

https://doi.org/10.1042/BJ20040974

Published: 24 September 2004

... sequence analysis of the region located upstream of the alternative exon revealed some potential DNA-binding sites, one of which is specific to the binding of CREM (cAMP-response element modulator) transcription factors. By using electrophoretic mobility-shift assays, we demonstrated that both nuclear...

View articletitled, cAMP-response element modulator-τ activates a distinct promoter element for the expression of the phospholipid hydroperoxide/sperm nucleus glutathione peroxidase gene

Articles

Expression of taurine transporter is regulated through the TonE (tonicity-responsive element)/TonEBP (TonE-binding protein) pathway and contributes to cytoprotection in HepG2 cells

Takashi ITO, Yasushi FUJIO, Mayo HIRATA, Tomoka TAKATANI, Takahisa MATSUDA, Satoko MURAOKA, Kyoko TAKAHASHI, Junichi AZUMA

Biochem J (2004) 382 (1): 177–182.

https://doi.org/10.1042/BJ20031838

Published: 10 August 2004

... in various tissues [ 13 ] although the signalling pathway remains unclear. Recently, the promoter region of rat TauT gene was identified [ 14 ]. It was then demonstrated that this promoter region contained the binding sites of p53 or WT-1, and that these transcriptional factors regulated TauT mRNA...

View articletitled, Expression of taurine transporter is regulated through the TonE (tonicity-responsive element)/TonEBP (TonE-binding protein) pathway and contributes to cytoprotection in HepG2 cells

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