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Volumn 109, Issue 45, 2012, Pages

Basic leucine zipper transcription factor Hac1 binds DNA in two distinct modes as revealed by microfluidic analyses

Author keywords

DNA specificity; Microfluidics

Indexed keywords

BASIC LEUCINE ZIPPER TRANSCRIPTION FACTOR; BASIC LEUCINE ZIPPER TRANSCRIPTION FACTOR HAC1; MESSENGER RNA; UNCLASSIFIED DRUG;

EID: 84868588824     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1212457109     Document Type: Article
Times cited : (47)

References (35)
  • 1
    • 79955424672 scopus 로고    scopus 로고
    • The signalling from endoplasmic reticulum-resident bZIP transcription factors involved in diverse cellular physiology
    • Asada R, Kanemoto S, Kondo S, Saito A, Imaizumi K (2011) The signalling from endoplasmic reticulum-resident bZIP transcription factors involved in diverse cellular physiology. J Biochem 149:507-518.
    • (2011) J Biochem , vol.149 , pp. 507-518
    • Asada, R.1    Kanemoto, S.2    Kondo, S.3    Saito, A.4    Imaizumi, K.5
  • 2
    • 0033785699 scopus 로고    scopus 로고
    • Structural basis for the diversity of DNA recognition by bZIP transcription factors
    • Fujii Y, Shimizu T, Toda T, Yanagida M, Hakoshima T (2000) Structural basis for the diversity of DNA recognition by bZIP transcription factors. Nat Struct Mol Biol 7:889-893.
    • (2000) Nat Struct Mol Biol , vol.7 , pp. 889-893
    • Fujii, Y.1    Shimizu, T.2    Toda, T.3    Yanagida, M.4    Hakoshima, T.5
  • 3
    • 69449092251 scopus 로고    scopus 로고
    • The importance of being flexible: The case of basic region leucine zipper transcriptional regulators
    • Miller M (2009) The importance of being flexible: The case of basic region leucine zipper transcriptional regulators. Curr Protein Pept Sci 10:244-269.
    • (2009) Curr Protein Pept Sci , vol.10 , pp. 244-269
    • Miller, M.1
  • 4
    • 71949088553 scopus 로고    scopus 로고
    • Structural basis of alternative DNA recognition by Maf transcription factors
    • Kurokawa H, et al. (2009) Structural basis of alternative DNA recognition by Maf transcription factors. Mol Cell Biol 29:6232-6244.
    • (2009) Mol Cell Biol , vol.29 , pp. 6232-6244
    • Kurokawa, H.1
  • 6
    • 0035812716 scopus 로고    scopus 로고
    • Block of HAC1 mRNA translation by long-range base pairing is released by cytoplasmic splicing upon induction of the unfolded protein response
    • DOI 10.1016/S0092-8674(01)00505-0
    • Rüegsegger U, Leber JH, Walter P (2001) Block of HAC1 mRNA translation by long-range base pairing is released by cytoplasmic splicing upon induction of the unfolded protein response. Cell 107:103-114. (Pubitemid 32972041)
    • (2001) Cell , vol.107 , Issue.1 , pp. 103-114
    • Ruegsegger, U.1    Leber, J.H.2    Walter, P.3
  • 7
    • 0026628290 scopus 로고
    • A 22 bp cis-acting element is necessary and sufficient for the induction of the yeast KAR2 (BiP) gene by unfolded proteins
    • Mori K, et al. (1992) A 22 bp cis-acting element is necessary and sufficient for the induction of the yeast KAR2 (BiP) gene by unfolded proteins. EMBO J 11:2583-2593.
    • (1992) EMBO J , vol.11 , pp. 2583-2593
    • Mori, K.1
  • 8
    • 0027465942 scopus 로고
    • The promoter region of the yeast KAR2 (BiP) gene contains a regulatory domain that responds to the presence of unfolded proteins in the endoplasmic reticulum
    • Kohno K, Normington K, Sambrook J, Gething MJ, Mori K (1993) The promoter region of the yeast KAR2 (BiP) gene contains a regulatory domain that responds to the presence of unfolded proteins in the endoplasmic reticulum. Mol Cell Biol 13:877-890. (Pubitemid 23040253)
    • (1993) Molecular and Cellular Biology , vol.13 , Issue.2 , pp. 877-890
    • Kohno, K.1    Normington, K.2    Sambrook, J.3    Gething, M.-J.4    Mori, K.5
  • 9
    • 0030228708 scopus 로고    scopus 로고
    • Signalling from endoplasmic reticulum to nucleus: Transcription factor with a basic-leucine zipper motif is required for the unfolded protein-response pathway
    • Mori K, Kawahara T, Yoshida H, Yanagi H, Yura T (1996) Signalling from endoplasmic reticulum to nucleus: Transcription factor with a basic-leucine zipper motif is required for the unfolded protein-response pathway. Genes Cells 1:803-817. (Pubitemid 126670790)
    • (1996) Genes to Cells , vol.1 , Issue.9 , pp. 803-817
    • Mori, K.1    Kawahara, T.2    Yoshida, H.3    Yanagi, H.4    Yura, T.5
  • 10
    • 0030297537 scopus 로고    scopus 로고
    • A novel mechanism for regulating activity of a transcription factor that controls the unfolded protein response
    • DOI 10.1016/S0092-8674(00)81360-4
    • Cox JS, Walter PA (1996) Novel mechanism for regulating activity of a transcription factor that controls the unfolded protein response. Cell 87:391-404. (Pubitemid 26374314)
    • (1996) Cell , vol.87 , Issue.3 , pp. 391-404
    • Cox, J.S.1    Walter, P.2
  • 11
    • 0032540253 scopus 로고    scopus 로고
    • Palindrome with spacer of one nucleotide is characteristic of the cis- acting unfolded protein response element in Saccharomyces cerevisiae
    • DOI 10.1074/jbc.273.16.9912
    • Mori K, Ogawa N, Kawahara T, Yanagi H, Yura T (1998) Palindrome with spacer of one nucleotide is characteristic of thecis-acting unfolded protein response element in Saccharomyces cerevisiae. J Biol Chem 273:9912-9920. (Pubitemid 28183090)
    • (1998) Journal of Biological Chemistry , vol.273 , Issue.16 , pp. 9912-9920
    • Mori, K.1    Ogawa, N.2    Kawahara, T.3    Yanagi, H.4    Yura, T.5
  • 12
    • 0027173977 scopus 로고
    • The FKB2 gene of Saccharomyces cerevisiae, encoding the immunosuppressant- binding protein FKBP-13, is regulated in response to accumulation of unfolded proteins in the endoplasmic reticulum
    • Partaledis JA, Berlin V (1993) The FKB2 gene of Saccharomyces cerevisiae, encoding the immunosuppressant-binding protein FKBP-13, is regulated in response to accumulation of unfolded proteins in the endoplasmic reticulum. Proc Natl Acad Sci USA 90:5450-5454. (Pubitemid 23176178)
    • (1993) Proceedings of the National Academy of Sciences of the United States of America , vol.90 , Issue.12 , pp. 5450-5454
    • Partaledis, J.A.1    Berlin, V.2
  • 13
    • 0028084733 scopus 로고
    • The unfolded-protein-response pathway in yeast
    • DOI 10.1016/0962-8924(94)90011-6
    • Shamu CE, Cox JS, Walter P (1994) The unfolded-protein-response pathway in yeast. Trends Cell Biol 4:56-60. (Pubitemid 24052972)
    • (1994) Trends in Cell Biology , vol.4 , Issue.2 , pp. 56-60
    • Shamu, C.E.1    Cox, J.S.2    Walter, P.3
  • 14
    • 0034724520 scopus 로고    scopus 로고
    • Functional and genomic analyses reveal an essential coordination between the unfolded protein response and ER-associated degradation
    • Travers KJ, et al. (2000) Functional and genomic analyses reveal an essential coordination between the unfolded protein response and ER-associated degradation. Cell 101:249-258.
    • (2000) Cell , vol.101 , pp. 249-258
    • Travers, K.J.1
  • 15
    • 19444370807 scopus 로고    scopus 로고
    • Gcn4p and novel upstream activating sequences regulate targets of the unfolded protein response
    • Patil CK, Li H, Walter P (2004) Gcn4p and novel upstream activating sequences regulate targets of the unfolded protein response. PLoS Biol 2:e246.
    • (2004) PLoS Biol , vol.2
    • Patil, C.K.1    Li, H.2    Walter, P.3
  • 16
    • 57749121616 scopus 로고    scopus 로고
    • A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters
    • Badis G, et al. (2008) A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters. Mol Cell 32:878-887.
    • (2008) Mol Cell , vol.32 , pp. 878-887
    • Badis, G.1
  • 17
    • 33846467150 scopus 로고    scopus 로고
    • A systems approach to measuring the binding energy landscapes of transcription factors
    • DOI 10.1126/science.1131007
    • Maerkl SJ, Quake SR (2007) A systems approach to measuring the binding energy landscapes of transcription factors. Science 315:233-237. (Pubitemid 46166367)
    • (2007) Science , vol.315 , Issue.5809 , pp. 233-237
    • Maerkl, S.J.1    Quake, S.R.2
  • 18
    • 77956654773 scopus 로고    scopus 로고
    • De novo identification and biophysical characterization of transcription-factor binding sites with microfluidic affinity analysis
    • Fordyce PM, et al. (2010) De novo identification and biophysical characterization of transcription-factor binding sites with microfluidic affinity analysis. Nat Biotechnol 28:970-975.
    • (2010) Nat Biotechnol , vol.28 , pp. 970-975
    • Fordyce, P.M.1
  • 19
    • 37748998907 scopus 로고    scopus 로고
    • fREDUCE: Detection of degenerate regulatory elements using correlation with expression
    • Wu R, Chaivorapol C, Zheng J, Li H, Liang S (2007) fREDUCE: Detection of degenerate regulatory elements using correlation with expression. BMC Bioinformatics 8:399-411.
    • (2007) BMC Bioinformatics , vol.8 , pp. 399-411
    • Wu, R.1    Chaivorapol, C.2    Zheng, J.3    Li, H.4    Liang, S.5
  • 21
    • 33748191291 scopus 로고    scopus 로고
    • Statistical mechanical modeling of genome-wide transcription factor occupancy data by MatrixREDUCE
    • DOI 10.1093/bioinformatics/btl223
    • Foat BC, Morozov AV, Bussemaker HJ (2006) Statistical mechanical modeling of genome-wide transcription factor occupancy data by MatrixREDUCE. Bioinformatics 22:e141-e149. (Pubitemid 44307813)
    • (2006) Bioinformatics , vol.22 , Issue.14
    • Foat, B.C.1    Morozov, A.V.2    Bussemaker, H.J.3
  • 22
    • 84857437687 scopus 로고    scopus 로고
    • Cellular noise regulons underlie fluctuations in Saccharomyces cerevisiae
    • Stewart-Ornstein J, Weissman JS, El-Samad H (2012) Cellular noise regulons underlie fluctuations in Saccharomyces cerevisiae. Mol Cell 45:483-493.
    • (2012) Mol Cell , vol.45 , pp. 483-493
    • Stewart-Ornstein, J.1    Weissman, J.S.2    El-Samad, H.3
  • 23
    • 83755196322 scopus 로고    scopus 로고
    • Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights
    • Gordân R, et al. (2011) Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights. Genome Biol 12:R125.
    • (2011) Genome Biol , vol.12
    • Gordân, R.1
  • 25
    • 0034634671 scopus 로고    scopus 로고
    • The structure of a CREB bZIP•somatostatin CRE complex reveals the basis for selective dimerization and divalent cation-enhanced DNA binding
    • Schumacher MA, Goodman RH, Brennan RG (2000) The structure of a CREB bZIP•somatostatin CRE complex reveals the basis for selective dimerization and divalent cation-enhanced DNA binding. J Biol Chem 275:35242-35247.
    • (2000) J Biol Chem , vol.275 , pp. 35242-35247
    • Schumacher, M.A.1    Goodman, R.H.2    Brennan, R.G.3
  • 26
    • 0038350876 scopus 로고    scopus 로고
    • Structural basis for DNA recognition by the basic region leucine zipper transcription factor CCAAT/enhancer-binding protein α
    • DOI 10.1074/jbc.M300417200
    • MillerM, Shuman JD, Sebastian T, Dauter Z, Johnson PF (2003) Structural basis for DNA recognition by the basic region leucine zipper transcription factor CCAAT/enhancer-binding protein α. J Biol Chem 278:15178-15184. (Pubitemid 36799852)
    • (2003) Journal of Biological Chemistry , vol.278 , Issue.17 , pp. 15178-15184
    • Miller, M.1    Shuman, J.D.2    Sebastian, T.3    Dauter, Z.4    Johnson, P.F.5
  • 27
    • 0027049805 scopus 로고
    • The GCN4 basic region leucine zipper binds DNA as a dimer of uninterrupted α helices: Crystal structure of the protein-DNA complex
    • DOI 10.1016/S0092-8674(05)80070-4
    • Ellenberger TE, Brandl CJ, Struhl K, Harrison SC (1992) The GCN4 basic region leucine zipper binds DNA as a dimer of uninterrupted α helices: Crystal structure of the protein-DNA complex. Cell 71:1223-1237. (Pubitemid 23016556)
    • (1992) Cell , vol.71 , Issue.7 , pp. 1223-1237
    • Ellenberger, T.E.1    Brandl, C.J.2    Struhl, K.3    Harrison, S.C.4
  • 28
    • 0029563634 scopus 로고
    • Crystal structure of a bZIP/DNA complex at 2.2 A: Determinants of DNA specific recognition
    • DOI 10.1006/jmbi.1995.0645
    • Keller W, König P, Richmond TJ (1995) Crystal structure of a bZIP/DNA complex at 2.2 \AA: Determinants of DNA specific recognition. J Mol Biol 254:657-667. (Pubitemid 26001798)
    • (1995) Journal of Molecular Biology , vol.254 , Issue.4 , pp. 657-667
    • Keller, W.1    Konig, P.2    Richmond, T.J.3
  • 29
    • 33750882505 scopus 로고    scopus 로고
    • Compact, universal DNA microarrays to comprehensively determine transcription-factor binding site specificities
    • DOI 10.1038/nbt1246, PII NBT1246
    • Berger MF, et al. (2006) Compact, universal DNA microarrays to comprehensively determine transcription-factor binding site specificities. Nat Biotechnol 24:1429-1435. (Pubitemid 44722107)
    • (2006) Nature Biotechnology , vol.24 , Issue.11 , pp. 1429-1435
    • Berger, M.F.1    Philippakis, A.A.2    Qureshi, A.M.3    He, F.S.4    Estep III, P.W.5    Bulyk, M.L.6
  • 30
    • 67649982744 scopus 로고    scopus 로고
    • Diversity and complexity in DNA recognition by transcription factors
    • Badis G, et al. (2009) Diversity and complexity in DNA recognition by transcription factors. Science 324:1720-1723.
    • (2009) Science , vol.324 , pp. 1720-1723
    • Badis, G.1
  • 31
    • 63849315606 scopus 로고    scopus 로고
    • High-resolution DNA-binding specificity analysis of yeast transcription factors
    • Zhu C, et al. (2009) High-resolution DNA-binding specificity analysis of yeast transcription factors. Genome Res 19:556-566.
    • (2009) Genome Res , vol.19 , pp. 556-566
    • Zhu, C.1
  • 32
    • 79960277492 scopus 로고    scopus 로고
    • Direct measurement of DNA affinity landscapes on a hight-hroughput sequencing instrument
    • Nutiu R, et al. (2011) Direct measurement of DNA affinity landscapes on a hight-hroughput sequencing instrument. Nat Biotechnol 29:659-664.
    • (2011) Nat Biotechnol , vol.29 , pp. 659-664
    • Nutiu, R.1
  • 33
    • 65249167505 scopus 로고    scopus 로고
    • DNA binding site sequence directs glucocorticoid receptor structure and activity
    • Meijsing SH, et al. (2009) DNA binding site sequence directs glucocorticoid receptor structure and activity. Science 324:407-410.
    • (2009) Science , vol.324 , pp. 407-410
    • Meijsing, S.H.1


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