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Journal articles on the topic 'CCAAT-Box'

Author: Grafiati

Published: 4 June 2021

Last updated: 26 January 2023

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1

Refaldi, Chiara, Elena Di Pierro, Maria C. Mocellini, and Maria D. Cappellini. "A Novel C to A Substitution in the CCAAT Box of beta Globin Gene." Blood 108, no. 11 (2006): 3810. http://dx.doi.org/10.1182/blood.v108.11.3810.3810.

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Abstract The promoter of the human beta-globin gene contains three positive cis-acting elements required for maximal transcription: the CACCC box located between −86 and −90, the CCAAT box located between −72 and − 76 and the TATA box located between −28 and −31 relative to the start site of transcription. Naturally occurring mutations within the TATA and the CACCC box regions have been recorded in patients with beta+ thalassemia. Mutations within the TATA box disrupt assembly of the basal transcription complex, while mutations at the CACCC box prevent binding of an erythroid-specific transcri

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2

Kern, M. J., and J. G. Woodward. "The same CCAAT box-binding factor binds to the promoter of two coordinately regulated major histocompatibility complex class II genes." Molecular and Cellular Biology 11, no. 1 (1991): 578–81. http://dx.doi.org/10.1128/mcb.11.1.578-581.1991.

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Using competition mobility shift, methylation interference, and proteolytic clipping DNA binding assays, we demonstrate that the protein binding the major histocompatibility complex A beta CCAAT box is indistinguishable from the protein previously named NF-Y, which binds the major histocompatibility complex E alpha CCAAT box. Although the two CCAAT boxes share the same 10-base core sequence, termed the Y box, their flanking sequences, known to be important for binding, are very different.

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3

Kern, M. J., and J. G. Woodward. "The same CCAAT box-binding factor binds to the promoter of two coordinately regulated major histocompatibility complex class II genes." Molecular and Cellular Biology 11, no. 1 (1991): 578–81. http://dx.doi.org/10.1128/mcb.11.1.578.

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Using competition mobility shift, methylation interference, and proteolytic clipping DNA binding assays, we demonstrate that the protein binding the major histocompatibility complex A beta CCAAT box is indistinguishable from the protein previously named NF-Y, which binds the major histocompatibility complex E alpha CCAAT box. Although the two CCAAT boxes share the same 10-base core sequence, termed the Y box, their flanking sequences, known to be important for binding, are very different.

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4

Duan, Zhijun, George Stamatoyannopoulos та Qiliang Li. "Role of NF-Y in In Vivo Regulation of the γ-Globin Gene". Molecular and Cellular Biology 21, № 9 (2001): 3083–95. http://dx.doi.org/10.1128/mcb.21.9.3083-3095.2001.

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ABSTRACT The duplicated CCAAT box is required for γ gene expression. We report here that the transcriptional factor NF-Y is recruited to the duplicated CCAAT box in vivo. A mutation of the duplicated CCAAT box that severely disrupts the NF-Y binding also reduces the accessibility level of the γ gene promoter, affects the assembly of basal transcriptional machinery, and increases the recruitment of GATA-1 to the locus control region (LCR) and the proximal promoter and the recruitment of transcription cofactor CBP/p300 to the LCR. These findings suggest that recruitment of NF-Y to the duplicated

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5

Ying, Baoling, Ann E. Tollefson, and William S. M. Wold. "Identification of a Previously Unrecognized Promoter That Drives Expression of the UXP Transcription Unit in the Human Adenovirus Type 5 Genome." Journal of Virology 84, no. 21 (2010): 11470–78. http://dx.doi.org/10.1128/jvi.01338-10.

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ABSTRACT We previously identified an adenovirus (Ad) protein named U exon protein (UXP) encoded by a leftward-strand (l-strand) transcription unit. Here we identify and characterize the UXP promoter. Primer extension and RNase protection assays mapped the transcription initiation site at 32 nucleotides upstream of the UXP gene initiation codon. A series of viral mutants with mutations at two putative inverted CCAAT (I-CCAAT) boxes and two E2F sites were generated. With mutants lacking the proximal I-CCAAT box, the UXP mRNA level decreased significantly to 30% of the Ad type 5 (Ad5) mRNA level

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6

Linhoff, M. W., K. L. Wright, and J. P. Ting. "CCAAT-binding factor NF-Y and RFX are required for in vivo assembly of a nucleoprotein complex that spans 250 base pairs: the invariant chain promoter as a model." Molecular and Cellular Biology 17, no. 8 (1997): 4589–96. http://dx.doi.org/10.1128/mcb.17.8.4589.

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The events that lead to promoter accessibility within chromatin are not completely understood. The invariant chain (Ii) promoter was used as a model to determine the contribution of different DNA-binding factors in establishing occupancy of a complex promoter. Gamma interferon induction of the Ii promoter requires the cooperation of multiple cis elements including distal S, X, and Y/CCAAT elements along with proximal GC and Y/CCAAT elements. The heteromeric transcription factor NF-Y binds to both Y/CCAAT elements. Genomic footprinting was used to analyze in vivo protein-DNA contacts for integr

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7

Kabe, Yasuaki, Joe Yamada, Hitoshi Uga, Yuki Yamaguchi, Tadashi Wada, and Hiroshi Handa. "NF-Y Is Essential for the Recruitment of RNA Polymerase II and Inducible Transcription of Several CCAAT Box-Containing Genes." Molecular and Cellular Biology 25, no. 1 (2005): 512–22. http://dx.doi.org/10.1128/mcb.25.1.512-522.2005.

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ABSTRACT Osteoclast differentiation factor (ODF)/receptor activator of NF-κB ligand is essential for inducing the differentiation of mature osteoclasts. We find that nuclear factor Y (NF-Y) binds to the CCAAT box on the ODF promoter and regulates its basal transcriptional activity. The CCAAT box on the ODF gene is required for its transcriptional induction by vitamin D3, suggesting that NF-Y coregulates this promoter along with VDR. Chromatin immunoprecipitation analysis reveals that NF-Y is required for the recruitment of RNA polymerase II (RNAPII) and TATA box binding protein on the ODF prom

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8

Morgan, W. D., G. T. Williams, R. I. Morimoto, J. Greene, R. E. Kingston, and R. Tjian. "Two transcriptional activators, CCAAT-box-binding transcription factor and heat shock transcription factor, interact with a human hsp70 gene promoter." Molecular and Cellular Biology 7, no. 3 (1987): 1129–38. http://dx.doi.org/10.1128/mcb.7.3.1129-1138.1987.

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We characterized the activity of a human hsp70 gene promoter by in vitro transcription. Analysis of 5' deletion and substitution mutants in HeLa nuclear extracts showed that the basal activity of the promoter depends primarily on a CCAAT-box sequence located at -65. A protein factor, CCAAT-box-binding transcription factor (CTF), was isolated from HeLa nuclear extracts and shown to be responsible for stimulation of transcription in a reconstituted in vitro system. DNase I footprinting revealed that CTF interacts with two CCAAT-box elements located at -65 and -147 of the human hsp70 promoter. An

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9

Morgan, W. D., G. T. Williams, R. I. Morimoto, J. Greene, R. E. Kingston, and R. Tjian. "Two transcriptional activators, CCAAT-box-binding transcription factor and heat shock transcription factor, interact with a human hsp70 gene promoter." Molecular and Cellular Biology 7, no. 3 (1987): 1129–38. http://dx.doi.org/10.1128/mcb.7.3.1129.

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We characterized the activity of a human hsp70 gene promoter by in vitro transcription. Analysis of 5' deletion and substitution mutants in HeLa nuclear extracts showed that the basal activity of the promoter depends primarily on a CCAAT-box sequence located at -65. A protein factor, CCAAT-box-binding transcription factor (CTF), was isolated from HeLa nuclear extracts and shown to be responsible for stimulation of transcription in a reconstituted in vitro system. DNase I footprinting revealed that CTF interacts with two CCAAT-box elements located at -65 and -147 of the human hsp70 promoter. An

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10

Connelly, S., and J. L. Manley. "RNA polymerase II transcription termination is mediated specifically by protein binding to a CCAAT box sequence." Molecular and Cellular Biology 9, no. 11 (1989): 5254–59. http://dx.doi.org/10.1128/mcb.9.11.5254-5259.1989.

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A region in the adenovirus major late promoter (MLP) containing a CCAAT consensus sequence can direct transcription termination of RNA polymerase II, a mechanism that possibly prevents transcriptional interference from upstream genes. Using a chimeric plasmid template that contains the MLP directing expression of the simian virus 40 early region, we showed that an inserted oligonucleotide containing only 13 base pairs of MLP sequences, including the CCAAT box, is capable of inducing transcription termination in an orientation-dependent, position-independent manner. Point mutations within the C

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11

Connelly, S., and J. L. Manley. "RNA polymerase II transcription termination is mediated specifically by protein binding to a CCAAT box sequence." Molecular and Cellular Biology 9, no. 11 (1989): 5254–59. http://dx.doi.org/10.1128/mcb.9.11.5254.

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A region in the adenovirus major late promoter (MLP) containing a CCAAT consensus sequence can direct transcription termination of RNA polymerase II, a mechanism that possibly prevents transcriptional interference from upstream genes. Using a chimeric plasmid template that contains the MLP directing expression of the simian virus 40 early region, we showed that an inserted oligonucleotide containing only 13 base pairs of MLP sequences, including the CCAAT box, is capable of inducing transcription termination in an orientation-dependent, position-independent manner. Point mutations within the C

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12

van Huijsduijnen, R. A. M. Hooft, J. Bollekens, A. Dom, C. Benoist, and D. Mathis. "Properties of a CCAAT box-binding protein." Nucleic Acids Research 15, no. 18 (1987): 7265–82. http://dx.doi.org/10.1093/nar/15.18.7265.

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13

Bucher, Philipp, and Edward N. Trifonov. "CCAAT Box Revisited: Bidirectionality, Location and Context." Journal of Biomolecular Structure and Dynamics 5, no. 6 (1988): 1231–36. http://dx.doi.org/10.1080/07391102.1988.10506466.

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14

Dorn, Arnulf, Jacques Bollekens, Adrian Staub, Christophe Benoist, and Diane Mathis. "A multiplicity of CCAAT box-binding proteins." Cell 50, no. 6 (1987): 863–72. http://dx.doi.org/10.1016/0092-8674(87)90513-7.

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15

COLLINS, Malcolm, Virna D. LEANER, Mziwandile MADIKIZELA та M. Iqbal PARKER. "Regulation of the human α2(1) procollagen gene by sequences adjacent to the CCAAT box". Biochemical Journal 322, № 1 (1997): 199–206. http://dx.doi.org/10.1042/bj3220199.

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The human, rat, mouse and chicken α2(I) procollagen promoters analysed to date all contain an inverted CCAAT box at -80. In this study we have examined the binding of nuclear proteins to the proximal promoter of the human α2(I) procollagen gene, where an inverted CCAAT box is flanked by a downstream GGAGG sequence and its inverted counterpart (CCTCC) on the upstream end. Each of the GGAGG sequences is separated from the inverted CCAAT box by a single pyrimidine nucleotide (). Electrophoretic mobility-shift assays (EMSAs) revealed that two distinct DNAŐprotein complexes formed on this DNA seque

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16

SUGIURA, Naoaki, and Kunio TAKISHIMA. "Regulation of the gene promoter for extracellular signal-regulated protein kinase 2 by transcription factors NF-Y and Sp3." Biochemical Journal 347, no. 1 (2000): 155–61. http://dx.doi.org/10.1042/bj3470155.

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We have previously shown that the maximal promoter activity of the gene for extracellular signal-regulated protein kinase 2 (ERK2; also known as p42 mitogen-activated protein kinase) resides in the 371 bp 5ʹ-flanking sequence. In the present study we defined roles for a CCAAT box and two adjacent GC boxes in the activity of this promoter. Deletion analysis and DNase I footprinting of this 371 bp region indicated that the CCAAT box at -64 and GC boxes at -86 and -39 are crucial for promoter activity. Electrophoretic mobility-shift assays showed that transcription factor NF-Y/CBF binds to the CC

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17

Celada, A., and R. A. Maki. "DNA binding of the mouse class II major histocompatibility CCAAT factor depends on two components." Molecular and Cellular Biology 9, no. 7 (1989): 3097–100. http://dx.doi.org/10.1128/mcb.9.7.3097-3100.1989.

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A CCAAT-binding factor that recognizes a CCAAT sequence (Y box) located upstream of the major histocompatibility class II gene I-A beta has been partially purified. This CCAAT-binding factor was found to consist of two components, designated factors A and B, both of which were required for efficient binding to the DNA. Factor A had an apparent molecular size of 34 kilodaltons, and factor B had an apparent molecular size of 42 to 46 kilodaltons.

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18

Celada, A., and R. A. Maki. "DNA binding of the mouse class II major histocompatibility CCAAT factor depends on two components." Molecular and Cellular Biology 9, no. 7 (1989): 3097–100. http://dx.doi.org/10.1128/mcb.9.7.3097.

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A CCAAT-binding factor that recognizes a CCAAT sequence (Y box) located upstream of the major histocompatibility class II gene I-A beta has been partially purified. This CCAAT-binding factor was found to consist of two components, designated factors A and B, both of which were required for efficient binding to the DNA. Factor A had an apparent molecular size of 34 kilodaltons, and factor B had an apparent molecular size of 42 to 46 kilodaltons.

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19

KOESSLER, Heiner, Joerg KAHLE, Christa BODE, Detlef DOENECKE, and Werner ALBIG. "Human replication-dependent histone H3 genes are activated by a tandemly arranged pair of two CCAAT boxes." Biochemical Journal 384, no. 2 (2004): 317–26. http://dx.doi.org/10.1042/bj20040502.

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We have analysed the transcriptional regulation of the human histone H3 genes using promoter deletion series, scanning mutagenesis, specific mutagenesis and electrophoretic mobility-shift assay experiments. The promoters of five of the six examined histone H3 genes showed near-maximal activity at lengths of 133–227 bp: H3/d 198 bp, H3/h 147 bp, H3/k 133 bp, H3/m 227 bp, H3/n 140 bp (exception H3/i). To search for functional cis-elements within these regions, we performed scanning mutagenesis of the two histone H3 promoters H3/k and H3/m. Mutagenesis revealed that the functional framework of th

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20

Schuettengruber, Bernd, Elisabeth Simboeck, Harald Khier, and Christian Seiser. "Autoregulation of Mouse Histone Deacetylase 1 Expression." Molecular and Cellular Biology 23, no. 19 (2003): 6993–7004. http://dx.doi.org/10.1128/mcb.23.19.6993-7004.2003.

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ABSTRACT Histone deacetylase 1 (HDAC1) is a major regulator of chromatin structure and gene expression. Tight control of HDAC1 expression is essential for development and normal cell cycle progression. In this report, we analyzed the regulation of the mouse HDAC1 gene by deacetylases and acetyltransferases. The murine HDAC1 promoter lacks a TATA box consensus sequence but contains several putative SP1 binding sites and a CCAAT box, which is recognized by the transcription factor NF-Y. HDAC1 promoter-reporter studies revealed that the distal SP1 site and the CCAAT box are crucial for HDAC1 prom

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21

Dolfini, Diletta, Federico Zambelli, Giulio Pavesi, and Roberto Mantovani. "A perspective of promoter architecture from the CCAAT box." Cell Cycle 8, no. 24 (2009): 4127–37. http://dx.doi.org/10.4161/cc.8.24.10240.

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22

Mao, Xianzhi, Li Xia, Guodong Liang, et al. "CCAAT-box contributions to human thymidine kinase mRNA expression." Journal of Cellular Biochemistry 57, no. 4 (1995): 701–10. http://dx.doi.org/10.1002/jcb.240570415.

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23

Budworth, Paul R., Patrick G. Quinn та John H. Nilson. "Multiple Characteristics of a Pentameric Regulatory Array Endow the Human α-Subunit Glycoprotein Hormone Promoter with Trophoblast Specificity and Maximal Activity". Molecular Endocrinology 11, № 11 (1997): 1669–80. http://dx.doi.org/10.1210/mend.11.11.0007.

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Abstract Trophoblast-specific expression of the humanα -subunit glycoprotein hormone gene requires a tightly linked array of five different regulatory elements [trophoblast-specific element (TSE), α-activating element (αACT), a tandem cAMP response element (CRE), junctional regulatory element (JRE), and a CCAAT box]. We examined their contextual contributions to trophoblast-specific expression by using transfection assays to evaluate activity of systematic block replacement mutations made within the 1500-bp 5′-flanking region of the human α-subunit gene. While all five elements were required f

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Carroll, S. L., D. J. Bergsma, and R. J. Schwartz. "A 29-nucleotide DNA segment containing an evolutionarily conserved motif is required in cis for cell-type-restricted repression of the chicken alpha-smooth muscle actin gene core promoter." Molecular and Cellular Biology 8, no. 1 (1988): 241–50. http://dx.doi.org/10.1128/mcb.8.1.241-250.1988.

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A series of 5' deletion mutations of the upstream flanking sequences of the chicken alpha-smooth muscle (aortic) actin gene was prepared and inserted into the chloramphenicol acetyltransferase expression vector pSV0CAT. Deletion recombinants were transfected into fibroblasts, which actively express the alpha-smooth muscle actin gene, and primary myoblast cultures, which accumulate much lower quantities of alpha-smooth muscle actin mRNAs. The first 122 nucleotides of 5'-flanking DNA were found to contain a "core" promoter capable of accurately directing high levels of transcription in both fibr

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Carroll, S. L., D. J. Bergsma, and R. J. Schwartz. "A 29-nucleotide DNA segment containing an evolutionarily conserved motif is required in cis for cell-type-restricted repression of the chicken alpha-smooth muscle actin gene core promoter." Molecular and Cellular Biology 8, no. 1 (1988): 241–50. http://dx.doi.org/10.1128/mcb.8.1.241.

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A series of 5' deletion mutations of the upstream flanking sequences of the chicken alpha-smooth muscle (aortic) actin gene was prepared and inserted into the chloramphenicol acetyltransferase expression vector pSV0CAT. Deletion recombinants were transfected into fibroblasts, which actively express the alpha-smooth muscle actin gene, and primary myoblast cultures, which accumulate much lower quantities of alpha-smooth muscle actin mRNAs. The first 122 nucleotides of 5'-flanking DNA were found to contain a "core" promoter capable of accurately directing high levels of transcription in both fibr

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Lum, L. S., L. A. Sultzman, R. J. Kaufman, D. I. Linzer, and B. J. Wu. "A cloned human CCAAT-box-binding factor stimulates transcription from the human hsp70 promoter." Molecular and Cellular Biology 10, no. 12 (1990): 6709–17. http://dx.doi.org/10.1128/mcb.10.12.6709-6717.1990.

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The basal promoter of the human hsp70 gene is predominantly controlled by a CCAAT element at position -70 relative to the transcriptional initiation site. We report the isolation of a novel cDNA clone encoding a 114-kDa polypeptide that binds to the CCAAT element of the hsp70 promoter. Expression of this CCAAT-binding factor (CBF) cDNA activated transcription from cotransfected hsp70 promoter-reporter gene constructs in a CCAAT-dependent manner. CCAAT-binding factor shows no homology to the previously identified human CCAAT transcription factor or rat CCAAT/enhancer-binding protein.

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27

Lum, L. S., L. A. Sultzman, R. J. Kaufman, D. I. Linzer, and B. J. Wu. "A cloned human CCAAT-box-binding factor stimulates transcription from the human hsp70 promoter." Molecular and Cellular Biology 10, no. 12 (1990): 6709–17. http://dx.doi.org/10.1128/mcb.10.12.6709.

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The basal promoter of the human hsp70 gene is predominantly controlled by a CCAAT element at position -70 relative to the transcriptional initiation site. We report the isolation of a novel cDNA clone encoding a 114-kDa polypeptide that binds to the CCAAT element of the hsp70 promoter. Expression of this CCAAT-binding factor (CBF) cDNA activated transcription from cotransfected hsp70 promoter-reporter gene constructs in a CCAAT-dependent manner. CCAAT-binding factor shows no homology to the previously identified human CCAAT transcription factor or rat CCAAT/enhancer-binding protein.

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28

Aalbers, Anna M., Sachiko Kajigaya, Vincent H. J. van der Velden, Marry M. van den Heuvel-Eibrink, Rodrigo T. Calado, and Neal S. Young. "Human Telomere Disease Due to Disruption of the CCAAT Box of the TERC Promoter." Blood 118, no. 21 (2011): 2405. http://dx.doi.org/10.1182/blood.v118.21.2405.2405.

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Abstract Abstract 2405 Telomeres, the structures capping the ends of linear chromosomes, consist of hundreds to thousands of TTAGGG repeats. To prevent critical telomere shortening, highly proliferative cells express telomerase (encoded by TERT), a reverse transcriptase that adds TTAGGG repeats to telomeres, using TERC as its RNA template. Mutations in TERT (resulting in amino acid changes and reduced enzymatic activity), in TERC (resulting in changes in RNA structure and impaired binding to telomerase), or in other components of the telomerase complex lead to accelerated telomere attrition. C

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Narendja, Frank M., Meryl A. Davis, and Michael J. Hynes. "AnCF, the CCAAT Binding Complex ofAspergillus nidulans, Is Essential for the Formation of a DNase I-Hypersensitive Site in the 5′ Region of theamdS Gene." Molecular and Cellular Biology 19, no. 10 (1999): 6523–31. http://dx.doi.org/10.1128/mcb.19.10.6523.

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ABSTRACT The CCAAT sequence in the amdS promoter ofAspergillus nidulans is recognized by AnCF, a complex consisting of the three evolutionary conserved subunits HapB, HapC, and HapE. In this study we have investigated the effect of AnCF on the chromatin structure of the amdS gene. The AnCF complex and the CCAAT sequence were found to be necessary for the formation of a nucleosome-free, DNase I-hypersensitive region in the 5′ region of theamdS gene. Deletion of the hapE gene results in loss of the DNase I-hypersensitive site, and the positioning of nucleosomes over the transcriptional start poi

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Hiller, S., M. Hengstler, M. Kunze, and R. Knippers. "Insertional activation of a promoterless thymidine kinase gene." Molecular and Cellular Biology 8, no. 8 (1988): 3298–302. http://dx.doi.org/10.1128/mcb.8.8.3298-3302.1988.

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A plasmid carrying a promoterless herpes simplex virus thymidine kinase gene was transfected via calcium phosphate precipitation into LM (tk-) mouse fibroblast cells. The transfected gene was efficiently expressed, as the transfected cells grew perfectly well in selective hypoxanthine-aminopterin-thymidine medium, suggesting that the thymidine kinase-coding region became linked to a promoterlike element on integration into the recipient genome. To investigate the structure of the surrogate promoter, we first isolated the integrated gene from a genomic library. The nucleotide sequence of the DN

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Hiller, S., M. Hengstler, M. Kunze, and R. Knippers. "Insertional activation of a promoterless thymidine kinase gene." Molecular and Cellular Biology 8, no. 8 (1988): 3298–302. http://dx.doi.org/10.1128/mcb.8.8.3298.

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A plasmid carrying a promoterless herpes simplex virus thymidine kinase gene was transfected via calcium phosphate precipitation into LM (tk-) mouse fibroblast cells. The transfected gene was efficiently expressed, as the transfected cells grew perfectly well in selective hypoxanthine-aminopterin-thymidine medium, suggesting that the thymidine kinase-coding region became linked to a promoterlike element on integration into the recipient genome. To investigate the structure of the surrogate promoter, we first isolated the integrated gene from a genomic library. The nucleotide sequence of the DN

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Laloum, Tom, Stéphane De Mita, Pascal Gamas, Maël Baudin, and Andreas Niebel. "CCAAT-box binding transcription factors in plants: Y so many?" Trends in Plant Science 18, no. 3 (2013): 157–66. http://dx.doi.org/10.1016/j.tplants.2012.07.004.

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Raymondjean, M., S. Cereghini, and M. Yaniv. "Several distinct "CCAAT" box binding proteins coexist in eukaryotic cells." Proceedings of the National Academy of Sciences 85, no. 3 (1988): 757–61. http://dx.doi.org/10.1073/pnas.85.3.757.

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Tang, Delia C., David Ebb, Ross C. Hardison та Griffin P. Rodgers. "Restoration of the CCAAT Box or Insertion of the CACCC Motif Activate δ-Globin Gene Expression". Blood 90, № 1 (1997): 421–27. http://dx.doi.org/10.1182/blood.v90.1.421.

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Abstract Hemoglobin A2 (HbA2 ), which contains δ-globin as its non–α-globin, represents a minor fraction of the Hb found in normal adults. It has been shown recently that HbA2 is as potent as HbF in inhibiting intracellular deoxy-HbS polymerization, and its expression is therefore relevant to sickle cell disease treatment strategies. To elucidate the mechanisms responsible for the low-level expression of the δ-globin gene in adult erythroid cells, we first compared promoter sequences and found that the δ-globin gene differs from the β-globin gene in the absence of an erythroid Krüppel-like fa

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Tang, Delia C., David Ebb, Ross C. Hardison та Griffin P. Rodgers. "Restoration of the CCAAT Box or Insertion of the CACCC Motif Activate δ-Globin Gene Expression". Blood 90, № 1 (1997): 421–27. http://dx.doi.org/10.1182/blood.v90.1.421.421_421_427.

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Hemoglobin A2 (HbA2 ), which contains δ-globin as its non–α-globin, represents a minor fraction of the Hb found in normal adults. It has been shown recently that HbA2 is as potent as HbF in inhibiting intracellular deoxy-HbS polymerization, and its expression is therefore relevant to sickle cell disease treatment strategies. To elucidate the mechanisms responsible for the low-level expression of the δ-globin gene in adult erythroid cells, we first compared promoter sequences and found that the δ-globin gene differs from the β-globin gene in the absence of an erythroid Krüppel-like factor (EKL

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McNabb, D. S., K. A. Tseng, and L. Guarente. "The Saccharomyces cerevisiae Hap5p homolog from fission yeast reveals two conserved domains that are essential for assembly of heterotetrameric CCAAT-binding factor." Molecular and Cellular Biology 17, no. 12 (1997): 7008–18. http://dx.doi.org/10.1128/mcb.17.12.7008.

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The CCAAT-binding factor is an evolutionarily conserved heteromeric transcription factor that binds to CCAAT box-containing upstream activation sites within the promoters of numerous eukaryotic genes. The CCAAT-binding factor from Saccharomyces cerevisiae is a heterotetramer that contains the subunits Hap2p, Hap3p, Hap4p, and Hap5p and that functions in the activation of genes involved in respiratory metabolism. Here we describe the isolation of the cDNA encoding the Schizosaccharomyces pombe homolog of Hap5p, designated php5+. We have shown that Php5p is a subunit of the CCAAT-binding factor

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Jin, Shengkan, and Kathleen W. Scotto. "Transcriptional Regulation of the MDR1 Gene by Histone Acetyltransferase and Deacetylase Is Mediated by NF-Y." Molecular and Cellular Biology 18, no. 7 (1998): 4377–84. http://dx.doi.org/10.1128/mcb.18.7.4377.

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ABSTRACT Recent studies have shown that the histone-modifying enzymes histone acetyltransferase (HAT) and histone deacetylase (HDAC) are involved in transcriptional activation and repression, respectively. However, little is known about the endogenous genes that are regulated by these enzymes or how specificity is achieved. In the present report, we demonstrate that HAT and HDAC activities modulate transcription of the P-glycoprotein-encoding gene, MDR1. Incubation of human colon carcinoma SW620 cells in 100-ng/ml trichostatin A (TSA), a specific HDAC inhibitor, increased the steady-state leve

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Aalbers, Anna M., Sachiko Kajigaya, Marry M. van den Heuvel-Eibrink, Vincent H. J. van der Velden, Rodrigo T. Calado, and Neal S. Young. "Human telomere disease due to disruption of the CCAAT box of the TERC promoter." Blood 119, no. 13 (2012): 3060–63. http://dx.doi.org/10.1182/blood-2011-10-383182.

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Abstract Mutations in the coding region of telomerase complex genes can result in accelerated telomere attrition and human disease. Manifestations of telomere disease include the bone marrow failure syndromes dyskeratosis congenita and aplastic anemia, acute myeloid leukemia, liver cirrhosis, and pulmonary fibrosis. Here, we describe a mutation in the CCAAT box (GCAAT) of the TERC gene promoter in a family in which multiple members had typical features of telomeropathy. The genetic alteration in this critical regulatory sequence resulted in reduced reporter gene activity and absent binding of

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Laporte, Philippe, Agnes Lepage, Joëlle Fournier, et al. "The CCAAT box-binding transcription factor NF-YA1 controls rhizobial infection." Journal of Experimental Botany 65, no. 2 (2013): 481–94. http://dx.doi.org/10.1093/jxb/ert392.

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Nardone, Valentina, Antonio Chaves-Sanjuan, and Marco Nardini. "Structural determinants for NF-Y/DNA interaction at the CCAAT box." Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms 1860, no. 5 (2017): 571–80. http://dx.doi.org/10.1016/j.bbagrm.2016.09.006.

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41

Bezzecchi, Eugenia, Andrea Bernardini, Mirko Ronzio, et al. "NF-Y Subunits Overexpression in HNSCC." Cancers 13, no. 12 (2021): 3019. http://dx.doi.org/10.3390/cancers13123019.

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NF-Y is the CCAAT-binding trimer formed by the histone fold domain (HFD), NF-YB/NF-YC and NF-YA. The CCAAT box is generally prevalent in promoters of “cancer” genes. We reported the overexpression of NF-YA in BRCA, LUAD and LUSC, and of all subunits in HCC. Altered splicing of NF-YA was found in breast and lung cancer. We analyzed RNA-seq datasets of TCGA and cell lines of head and neck squamous cell carcinomas (HNSCC). We partitioned all TCGA data into four subtypes, deconvoluted single-cell RNA-seq of tumors and derived survival curves. The CCAAT box was enriched in the promoters of overexpr

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42

Barnhart, K. M., C. G. Kim, S. S. Banerji, and M. Sheffery. "Identification and characterization of multiple erythroid cell proteins that interact with the promoter of the murine alpha-globin gene." Molecular and Cellular Biology 8, no. 8 (1988): 3215–26. http://dx.doi.org/10.1128/mcb.8.8.3215-3226.1988.

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The proteins responsible for erythroid-specific footprints extending to -180 on the mouse alpha-globin gene were identified, enriched, and characterized from extracts of murine erythroleukemia (MEL) cells. Three proteins accounted for most aspects of the footprints. The binding sites of two proteins, termed alpha-CP1 and alpha-CP2, overlapped in the CCAAT box. Further characterization of these two CCAAT binding proteins showed that neither interacted with the adenovirus origin of replication, a strong CCAAT transcription factor-nuclear factor 1 binding site. A third protein, termed alpha-IRP,

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43

Barnhart, K. M., C. G. Kim, S. S. Banerji, and M. Sheffery. "Identification and characterization of multiple erythroid cell proteins that interact with the promoter of the murine alpha-globin gene." Molecular and Cellular Biology 8, no. 8 (1988): 3215–26. http://dx.doi.org/10.1128/mcb.8.8.3215.

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The proteins responsible for erythroid-specific footprints extending to -180 on the mouse alpha-globin gene were identified, enriched, and characterized from extracts of murine erythroleukemia (MEL) cells. Three proteins accounted for most aspects of the footprints. The binding sites of two proteins, termed alpha-CP1 and alpha-CP2, overlapped in the CCAAT box. Further characterization of these two CCAAT binding proteins showed that neither interacted with the adenovirus origin of replication, a strong CCAAT transcription factor-nuclear factor 1 binding site. A third protein, termed alpha-IRP,

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44

Quitschke, W. W., L. DePonti-Zilli, Z. Y. Lin, and B. M. Paterson. "Identification of two nuclear factor-binding domains on the chicken cardiac actin promoter: implications for regulation of the gene." Molecular and Cellular Biology 9, no. 8 (1989): 3218–30. http://dx.doi.org/10.1128/mcb.9.8.3218-3230.1989.

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The cis-acting regions that appear to be involved in negative regulation of the chicken alpha-cardiac actin promoter both in vivo and in vitro have been identified. A nuclear factor(s) binding to the proximal region mapped over the TATA element between nucleotides -50 and -25. In the distal region, binding spanned nucleotides -136 to -112, a region that included a second CArG box (CArG2) 5' to the more familiar CCAAT-box (CArG1) consensus sequence. Nuclear factors binding to these different domains were found in both muscle and nonmuscle preparations but were detectable at considerably lower l

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45

Quitschke, W. W., L. DePonti-Zilli, Z. Y. Lin, and B. M. Paterson. "Identification of two nuclear factor-binding domains on the chicken cardiac actin promoter: implications for regulation of the gene." Molecular and Cellular Biology 9, no. 8 (1989): 3218–30. http://dx.doi.org/10.1128/mcb.9.8.3218.

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The cis-acting regions that appear to be involved in negative regulation of the chicken alpha-cardiac actin promoter both in vivo and in vitro have been identified. A nuclear factor(s) binding to the proximal region mapped over the TATA element between nucleotides -50 and -25. In the distal region, binding spanned nucleotides -136 to -112, a region that included a second CArG box (CArG2) 5' to the more familiar CCAAT-box (CArG1) consensus sequence. Nuclear factors binding to these different domains were found in both muscle and nonmuscle preparations but were detectable at considerably lower l

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46

Tronche, F., A. Rollier, I. Bach, M. C. Weiss, and M. Yaniv. "The rat albumin promoter: cooperation with upstream elements is required when binding of APF/HNF1 to the proximal element is partially impaired by mutation or bacterial methylation." Molecular and Cellular Biology 9, no. 11 (1989): 4759–66. http://dx.doi.org/10.1128/mcb.9.11.4759-4766.1989.

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We have characterized in the accompanying paper (P. Herbomel, A. Rollier, F. Tronche, M.-O. Ott, M. Yaniv, and M. C. Weiss, Mol. Cell. Biol. 9:4750-4758, 1989) six different elements in the albumin promoter. One of them, the proximal element (PE), is the binding site for a strictly liver specific factor, APF/HNF1. This binding site contains a bacterial DAM DNA methylase methylation target sequence which, when methylated, decreases the affinity of the protein for this element. When the different albumin promoter constructions were prepared in an Escherichia coli deoxyadenosine methylase-negativ

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Tronche, F., A. Rollier, I. Bach, M. C. Weiss, and M. Yaniv. "The rat albumin promoter: cooperation with upstream elements is required when binding of APF/HNF1 to the proximal element is partially impaired by mutation or bacterial methylation." Molecular and Cellular Biology 9, no. 11 (1989): 4759–66. http://dx.doi.org/10.1128/mcb.9.11.4759.

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We have characterized in the accompanying paper (P. Herbomel, A. Rollier, F. Tronche, M.-O. Ott, M. Yaniv, and M. C. Weiss, Mol. Cell. Biol. 9:4750-4758, 1989) six different elements in the albumin promoter. One of them, the proximal element (PE), is the binding site for a strictly liver specific factor, APF/HNF1. This binding site contains a bacterial DAM DNA methylase methylation target sequence which, when methylated, decreases the affinity of the protein for this element. When the different albumin promoter constructions were prepared in an Escherichia coli deoxyadenosine methylase-negativ

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Gallinari, P., F. La Bella, and N. Heintz. "Characterization and purification of H1TF2, a novel CCAAT-binding protein that interacts with a histone H1 subtype-specific consensus element." Molecular and Cellular Biology 9, no. 4 (1989): 1566–75. http://dx.doi.org/10.1128/mcb.9.4.1566-1575.1989.

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Definition of mechanisms regulating human histone H1 gene transcription during the cell cycle requires the isolation and biochemical characterization of protein factors which interact with specific promoter elements. Two distinct binding activities have been identified in nuclear extracts from HeLa cells and mapped within a 180-base-pair (bp) region of a cell cycle-regulated H1 gene promoter. H1TF1 bound to an H1-specific A + C-rich sequence (AC box), 100 bp upstream of the cap site; H1TF2 interacted with the H1 subtype-specific consensus element and was dependent on the presence of an intact

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Li, J. J., and J. Sodek. "Cloning and characterization of the rat bone sialoprotein gene promoter." Biochemical Journal 289, no. 3 (1993): 625–29. http://dx.doi.org/10.1042/bj2890625.

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To study the transcriptional regulation of the rat bone sialoprotein (BSP) gene, the nucleotide sequence of a approximately 1 kb HindIII/KpnI subfragment from a genomic clone containing the 5′ flanking sequence, exon 1 and part of intron 1 was determined and the transcription start site defined. This region includes an inverted TATA element (nt -24 to -19), an inverted CCAAT box, a homeobox-binding site, a putative 1,25-dihydroxyvitamin D3 response element (VDRE) sequence overlapping the inverted TATA sequence, and a novel 18 nt palindrome that may control the tissue-specific transcription of

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50

Gallinari, P., F. La Bella, and N. Heintz. "Characterization and purification of H1TF2, a novel CCAAT-binding protein that interacts with a histone H1 subtype-specific consensus element." Molecular and Cellular Biology 9, no. 4 (1989): 1566–75. http://dx.doi.org/10.1128/mcb.9.4.1566.

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Abstract:

Definition of mechanisms regulating human histone H1 gene transcription during the cell cycle requires the isolation and biochemical characterization of protein factors which interact with specific promoter elements. Two distinct binding activities have been identified in nuclear extracts from HeLa cells and mapped within a 180-base-pair (bp) region of a cell cycle-regulated H1 gene promoter. H1TF1 bound to an H1-specific A + C-rich sequence (AC box), 100 bp upstream of the cap site; H1TF2 interacted with the H1 subtype-specific consensus element and was dependent on the presence of an intact

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