Crystal Structure of Negative Cofactor 2 Recognizing the TBP-DNA Transcription Complex

Kamada, Katsuhiko; Shu, Fong; Chen, Hua; Malik, Sohail; Stelzer, Gertraud; Roeder, Robert G.; Meisterernst, Michael; Burley, Stephen K.

doi:10.1016/S0092-8674(01)00417-2

Crystal Structure of Negative Cofactor 2 Recognizing the TBP-DNA Transcription Complex

Journal Article · Sun Jul 01 04:00:00 EDT 2001 · Cell

DOI:https://doi.org/10.1016/S0092-8674(01)00417-2· OSTI ID:1901339

Kamada, Katsuhiko; Shu, Fong; Chen, Hua; Malik, Sohail; Stelzer, Gertraud; Roeder, Robert G.; Meisterernst, Michael; Burley, Stephen K.

Research Organization:: Advanced Photon Source (APS), Argonne National Laboratory (ANL), Argonne, IL (US)

Sponsoring Organization:: DOE - Office Of Science; OTHER

OSTI ID:: 1901339

Journal Information:: Cell, Journal Name: Cell Journal Issue: (1) Vol. 106

Country of Publication:: United States

Language:: ENGLISH

References (55)

The Crystal Structure of a Hyperthermophilic Archaeal TATA-box Binding Protein DeDecker, Brian S.; O'Brien, Ronan; Fleming, Patrick J. Journal of Molecular Biology, Vol. 264, Issue 5 https://doi.org/10.1006/jmbi.1996.0697	journal	December 1996
Silenced Chromatin Is Permissive to Activator Binding and PIC Recruitment Sekinger, Edward A.; Gross, David S. Cell, Vol. 105, Issue 3 https://doi.org/10.1016/S0092-8674(01)00329-4	journal	May 2001
The NC2 repressor is dispensable in yeast mutated for the Sin4p component of the holoenzyme and plays roles similar to Mot1p in vivo Lemaire, Marc; Xie, Jun; Meisterernst, Michael Molecular Microbiology, Vol. 36, Issue 1 https://doi.org/10.1046/j.1365-2958.2000.01839.x	journal	April 2000
A histone octamer-like structure within TFIID Hoffmann, Alexander; Chiang, Cheng-Ming; Oelgeschläger, Thomas Nature, Vol. 380, Issue 6572 https://doi.org/10.1038/380356a0	journal	March 1996
Saccharomyces cerevisiae BUR6 encodes a DRAP1/NC2alpha homolog that has both positive and negative roles in transcription in vivo Prelich, G. Molecular and Cellular Biology, Vol. 17, Issue 4 https://doi.org/10.1128/MCB.17.4.2057	journal	April 1997
Co-crystal structure of TBP recognizing the minor groove of a TATA element Kim, Joseph L.; Nikolov, Dimitar B.; Burley, Stephen K. Nature, Vol. 365, Issue 6446 https://doi.org/10.1038/365520a0	journal	October 1993
How Proteins Recognize the TATA Box Juo, Zong Sean; Chiu, Thang Kien; Leiberman, Paul M. Journal of Molecular Biology, Vol. 261, Issue 2 https://doi.org/10.1006/jmbi.1996.0456	journal	August 1996
[20] Processing of X-ray diffraction data collected in oscillation mode Otwinowski, Zbyszek; Minor, Wladek Macromolecular Crystallography Part A, 307-326 https://doi.org/10.1016/S0076-6879(97)76066-X	book	January 1997
Structural basis of preinitiation complex assembly on human Pol II promoters Tsai, F. T. F. The EMBO Journal, Vol. 19, Issue 1 https://doi.org/10.1093/emboj/19.1.25	journal	January 2000
TATA element recognition by the TATA box-binding protein has been conserved throughout evolution Patikoglou, G. A.; Kim, J. L.; Sun, L. Genes & Development, Vol. 13, Issue 24 https://doi.org/10.1101/gad.13.24.3217	journal	December 1999
A variety of DNA-binding and multimeric proteins contain the histone fold motif Baxevanis, Andreas D.; Arents, Gina; Moudrianakis, Evangelos N. Nucleic Acids Research, Vol. 23, Issue 14 https://doi.org/10.1093/nar/23.14.2685	journal	January 1995
Crystal Structure of the Yeast TFIIA/TBP/DNA Complex Geiger, J. H.; Hahn, S.; Lee, S. Science, Vol. 272, Issue 5263 https://doi.org/10.1126/science.272.5263.830	journal	May 1996
PROCHECK: a program to check the stereochemical quality of protein structures Laskowski, R. A.; MacArthur, M. W.; Moss, D. S. Journal of Applied Crystallography, Vol. 26, Issue 2 https://doi.org/10.1107/S0021889892009944	journal	April 1993
The 2.1-A crystal structure of an archaeal preinitiation complex: TATA-box-binding protein/transcription factor (II)B core/TATA-box Kosa, P. F.; Ghosh, G.; DeDecker, B. S. Proceedings of the National Academy of Sciences, Vol. 94, Issue 12 https://doi.org/10.1073/pnas.94.12.6042	journal	June 1997
Protein folding and association: Insights from the interfacial and thermodynamic properties of hydrocarbons Nicholls, Anthony; Sharp, Kim A.; Honig, Barry Proteins: Structure, Function, and Genetics, Vol. 11, Issue 4 https://doi.org/10.1002/prot.340110407	journal	December 1991
Functional antagonism between RNA polymerase II holoenzyme and global negative regulator NC2 in vivo Gadbois, Ellen L.; Chao, David M.; Reese, Joseph C. Proceedings of the National Academy of Sciences, Vol. 94, Issue 7 https://doi.org/10.1073/pnas.94.7.3145	journal	April 1997
Yeast NC2 Associates with the RNA Polymerase II Preinitiation Complex and Selectively Affects Transcription In Vivo Geisberg, Joseph V.; Holstege, Frank C.; Young, Richard A. Molecular and Cellular Biology, Vol. 21, Issue 8 https://doi.org/10.1128/MCB.21.8.2736-2742.2001	journal	April 2001
A dynamic model for PC4 coactivator function in RNA polymerase II transcription Malik, Sohail; Guermah, Mohamed; Roeder, Robert G. Proceedings of the National Academy of Sciences, Vol. 95, Issue 5 https://doi.org/10.1073/pnas.95.5.2192	journal	March 1998
A Basal Transcription Factor That Activates or Represses Transcription Willy, Patricia J.; Kobayashi, Ryuji; Kadonaga, James T. Science, Vol. 290, Issue 5493 https://doi.org/10.1126/science.290.5493.982	journal	November 2000
The role of general initiation factors in transcription by RNA polymerase II Roeder, R. Trends in Biochemical Sciences, Vol. 21, Issue 9 https://doi.org/10.1016/S0968-0004(96)10050-5	journal	September 1996
The histone fold is a key structural motif of transcription factor TFIID Gangloff, Yann-Gaël; Romier, Christophe; Thuault, Sylvie Trends in Biochemical Sciences, Vol. 26, Issue 4 https://doi.org/10.1016/S0968-0004(00)01741-2	journal	April 2001
Database of homology-derived protein structures and the structural meaning of sequence alignment Sander, Chris; Schneider, Reinhard Proteins: Structure, Function, and Genetics, Vol. 9, Issue 1 https://doi.org/10.1002/prot.340090107	journal	January 1991
A Negative Cofactor Containing Dr1/p19 Modulates Transcription with TFIIA in a Promoter-specific Fashion Kim, Jaesang; Parvin, Jeffrey D.; Shykind, Benjamin M. Journal of Biological Chemistry, Vol. 271, Issue 31 https://doi.org/10.1074/jbc.271.31.18405	journal	August 1996
Solution Structure of a TBP–TAFII230 Complex Liu, Dingjiang; Ishima, Rieko; Tong, Kit I. Cell, Vol. 94, Issue 5 https://doi.org/10.1016/S0092-8674(00)81599-8	journal	September 1998
Interplay of Positive and Negative Regulators in Transcription Initiation by RNA Polymerase II Holoenzyme Lee, Tong Ihn; Wyrick, John J.; Koh, Sang Seok Molecular and Cellular Biology, Vol. 18, Issue 8 https://doi.org/10.1128/MCB.18.8.4455	journal	August 1998
Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination Brünger, A. T.; Adams, P. D.; Clore, G. M. Acta Crystallographica Section D Biological Crystallography, Vol. 54, Issue 5 https://doi.org/10.1107/S0907444998003254	journal	September 1998
Cap-Dependent Translation Initiation in Eukaryotes Is Regulated by a Molecular Mimic of eIF4G Marcotrigiano, Joseph; Gingras, Anne-Claude; Sonenberg, Nahum Molecular Cell, Vol. 3, Issue 6 https://doi.org/10.1016/S1097-2765(01)80003-4	journal	June 1999
Crystal structure of a TFIIB–TBP–TATA-element ternary complex Nikolov, Dimitar B.; Chen, Hua; Halay, Elaine D. Nature, Vol. 377, Issue 6545 https://doi.org/10.1038/377119a0	journal	September 1995
The downstream core promoter element, DPE, is conserved from Drosophila to humans and is recognized by TAFII60 of Drosophila Burke, T. W.; Kadonaga, J. T. Genes & Development, Vol. 11, Issue 22 https://doi.org/10.1101/gad.11.22.3020	journal	November 1997
Functional dissection of a human Dr1-DRAP1 repressor complex Yeung, K.; Kim, S.; Reinberg, D. Molecular and Cellular Biology, Vol. 17, Issue 1 https://doi.org/10.1128/MCB.17.1.36	journal	January 1997
The C-terminal domain-phosphorylated IIO form of RNA polymerase II is associated with the transcription repressor NC2 (Dr1/DRAP1) and is required for transcription activation in human nuclear extracts Castaño, Enrique; Gross, Petra; Wang, Zhengxin Proceedings of the National Academy of Sciences, Vol. 97, Issue 13 https://doi.org/10.1073/pnas.140202297	journal	June 2000
Crystal structure of the nucleosome core particle at 2.8 Å resolution Luger, Karolin; Mäder, Armin W.; Richmond, Robin K. Nature, Vol. 389, Issue 6648 https://doi.org/10.1038/38444	journal	September 1997
Biochemistry and Structural Biology of Transcription Factor IID (TFIID) Burley, S. K.; Roeder, R. G. Annual Review of Biochemistry, Vol. 65, Issue 1 https://doi.org/10.1146/annurev.bi.65.070196.004005	journal	June 1996
TBP-associated factors (TAF II s): multiple, selective transcriptional mediators in common complexes Green, Michael R. Trends in Biochemical Sciences, Vol. 25, Issue 2 https://doi.org/10.1016/S0968-0004(99)01527-3	journal	February 2000
Crystal structure of a human TATA box-binding protein/TATA element complex. Nikolov, D. B.; Chen, H.; Halay, E. D. Proceedings of the National Academy of Sciences, Vol. 93, Issue 10 https://doi.org/10.1073/pnas.93.10.4862	journal	May 1996
Requirement of a corepressor for Dr1-mediated repression of transcription. Mermelstein, F.; Yeung, K.; Cao, J. Genes & Development, Vol. 10, Issue 8 https://doi.org/10.1101/gad.10.8.1033	journal	April 1996
The Dr1/DRAP1 heterodimer is a global repressor of transcription in vivo Kim, SungJoon; Na, Jong G.; Hampsey, Michael Proceedings of the National Academy of Sciences, Vol. 94, Issue 3 https://doi.org/10.1073/pnas.94.3.820	journal	February 1997
Topology and reorganization of a human TFIID–promoter complex Oelgeschläger,, Thomas; Chiang, Cheng-Ming; Roeder, Robert G. Nature, Vol. 382, Issue 6593 https://doi.org/10.1038/382735a0	journal	August 1996
SIR repression of a yeast heat shock gene: UAS and TATA footprints persist within heterochromatin Sekinger, E. A. The EMBO Journal, Vol. 18, Issue 24 https://doi.org/10.1093/emboj/18.24.7041	journal	December 1999
A new regulatory domain on the TATA-binding protein Cang, Y. The EMBO Journal, Vol. 18, Issue 23 https://doi.org/10.1093/emboj/18.23.6662	journal	December 1999
Genetic Analysis of the Ydr1-Bur6 Repressor Complex Reveals an Intricate Balance among Transcriptional Regulatory Proteins in Yeast Kim, Sungjoon; Cabane, Kettly; Hampsey, Michael Molecular and Cellular Biology, Vol. 20, Issue 7 https://doi.org/10.1128/MCB.20.7.2455-2465.2000	journal	April 2000
The histone fold: a ubiquitous architectural motif utilized in DNA compaction and protein dimerization. Arents, G.; Moudrianakis, E. N. Proceedings of the National Academy of Sciences, Vol. 92, Issue 24 https://doi.org/10.1073/pnas.92.24.11170	journal	November 1995
Crystal structure of a yeast TBP/TATA-box complex Kim, Youngchang; Geiger, James. H.; Hahn, Steven Nature, Vol. 365, Issue 6446 https://doi.org/10.1038/365512a0	journal	October 1993
Dr1, a TATA-binding protein-associated phosphoprotein and inhibitor of class II gene transcription Inostroza, A.; Mermelstein, Fred H.; Ha, Ilho Cell, Vol. 70, Issue 3 https://doi.org/10.1016/0092-8674(92)90172-9	journal	August 1992
Structural similarity between TAFs and the heterotetrameric core of the histone octamer Xie, Xiaoling; Kokubo, Tetsuro; Cohen, Steven L. Nature, Vol. 380, Issue 6572 https://doi.org/10.1038/380316a0	journal	March 1996
TFIID sequence recognition of the initiator and sequences farther downstream in Drosophila class II genes. Purnell, B. A.; Emanuel, P. A.; Gilmour, D. S. Genes & Development, Vol. 8, Issue 7 https://doi.org/10.1101/gad.8.7.830	journal	April 1994
Repression Maldonado, Edio; Hampsey, Michael; Reinberg, Danny Cell, Vol. 99, Issue 5 https://doi.org/10.1016/S0092-8674(00)81533-0	journal	November 1999
The human general co-factors Kaiser, K.; Meisterernst, M. Trends in Biochemical Sciences, Vol. 21, Issue 9 https://doi.org/10.1016/S0968-0004(96)10043-8	journal	September 1996
Human TAFII28 and TAFII18 Interact through a Histone Fold Encoded by Atypical Evolutionary Conserved Motifs Also Found in the SPT3 Family Birck, Catherine; Poch, Olivier; Romier, Christophe Cell, Vol. 94, Issue 2 https://doi.org/10.1016/S0092-8674(00)81423-3	journal	July 1998
A mechanism for repression of class II gene transcription through specific binding of NC2 to TBP-promoter complexes via heterodimeric histone fold domains. Goppelt, A.; Stelzer, G.; Lottspeich, F. The EMBO Journal, Vol. 15, Issue 12 https://doi.org/10.1002/j.1460-2075.1996.tb00673.x	journal	June 1996
Crystal structure of TFIID TATA-box binding protein Nikolov, Dimitar B.; Hu, Shu-Hong; Lin, Judith Nature, Vol. 360, Issue 6399 https://doi.org/10.1038/360040a0	journal	November 1992
AMoRe : an automated package for molecular replacement Navaza, J. Acta Crystallographica Section A Foundations of Crystallography, Vol. 50, Issue 2 https://doi.org/10.1107/S0108767393007597	journal	March 1994
Family of proteins that interact with TFIID and regulate promoter activity Meisterernst, Michael; Roeder, Robert G. Cell, Vol. 67, Issue 3 https://doi.org/10.1016/0092-8674(91)90530-C	journal	November 1991
Crystal structure of yeast TATA-binding protein and model for interaction with DNA. Chasman, D. I.; Flaherty, K. M.; Sharp, P. A. Proceedings of the National Academy of Sciences, Vol. 90, Issue 17 https://doi.org/10.1073/pnas.90.17.8174	journal	September 1993
Crystal structure of a yeast TFIIA/TBP/DNA complex Tan, Song; Hunziker, Yvonne; Sargent, David F. Nature, Vol. 381, Issue 6578 https://doi.org/10.1038/381127a0	journal	May 1996

Similar Records

Crystal Structure of Negative Cofactor 2 Recognizing the TBP-DNA Transcription Complex

Journal Article · Sun Dec 31 23:00:00 EST 2000 · Cell · OSTI ID:796800

Crystal Structure of a Biliverdin IXalpha Reductase Enzyme-Cofactor Complex

Journal Article · Mon Dec 31 23:00:00 EST 2001 · J.Mol.Biol.320:1199,2002 · OSTI ID:802650

Crystal Structure of the Heterodimeric CLOCK:BMAL1 Transcriptional Activator Complex

Journal Article · Tue May 01 00:00:00 EDT 2012 · Science · OSTI ID:1869998

Crystal Structure of Negative Cofactor 2 Recognizing the TBP-DNA Transcription Complex

Citation Formats

References (55)

Similar Records

Related Subjects