Virtually unidirectional binding of TBP to the AdMLP TATA box within the quaternary complex with TFIIA and TFIIB

Chemistry and Biology

Volumn 7, Issue 8, 2000, Pages 601-610

  Kays, Alexis R ^a   Schepartz, Alanna ^a  

^a YALE UNIVERSITY   (United States)

Author keywords

Affinity cleavage; Preinitiation complex; Protein nucleic acid interaction; Transcription

Indexed keywords

DEOXYRIBONUCLEASE I; DNA; DNA BINDING PROTEIN; HOLOENZYME; OLIGODEOXYRIBONUCLEOTIDE; RNA POLYMERASE II; TATA BINDING PROTEIN; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR IIA; TRANSCRIPTION FACTOR IIB;

ADENOVIRUS; ARTICLE; CHEMICAL STRUCTURE; CHEMISTRY; DNA FOOTPRINTING; GENETICS; METABOLISM; MUTATION; NUCLEOTIDE SEQUENCE; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN TERTIARY STRUCTURE; SACCHAROMYCES CEREVISIAE; TATA BOX;

ADENOVIRIDAE; BASE SEQUENCE; DEOXYRIBONUCLEASE I; DNA; DNA FOOTPRINTING; DNA-BINDING PROTEINS; HOLOENZYMES; MODELS, MOLECULAR; MUTATION; OLIGODEOXYRIBONUCLEOTIDES; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN STRUCTURE, TERTIARY; RNA POLYMERASE II; SACCHAROMYCES CEREVISIAE; TATA BOX; TATA-BOX BINDING PROTEIN; TRANSCRIPTION FACTOR TFIIA; TRANSCRIPTION FACTOR TFIIB; TRANSCRIPTION FACTORS;

ADENOVIRIDAE; EUKARYOTA; SACCHAROMYCES CEREVISIAE;

EID: 0033830894     PISSN: 10745521     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1074-5521(00)00009-0     Document Type: Article

References (80)

1. Binding of TBP to promoters in vivo is stimulated by activators and requires Pol II holoenzyme
2. Enhancement of TBP binding by activators and general transcription factors
3. The role of general initiation factors in transcription by RNA polymerase II
4. The biochemistry of transcription in eukaryotes: A paradigm for multisubunit regulatory complexes
5. General initiation factors of RNA polymerase II
6. Biochemistry and structural biology of transcription factor IID (TFIID)
7. Regulation of gene expression by TBP-associated proteins
8. Transcription activation in cells lacking TAFIIs
9. TBP-associated factors are not generally required for transcriptional activation in yeast
10. TATA box mimicry by TFIID: Autoinhibition of pol II transcription
11. Transcriptional activation: A complex puzzle with few easy pieces
12. TAFII150: Similarity to yeast gene TSM-1 and specific binding to core promoter DNA
13. Transcription: Basal factors and abtivation
14. TAFII-independent activation mediated by human TBP in the presence of the positive cofactor PC4
15. Competition between chromatin and transcription complex assembly regulates gene expression during early development
16. Increased recruitment of TATA-binding protein to the promoter by transcriptional activation domains in vivo
17. TFIID sequence recognition of the initiator and sequences farther downstream in Drosophila class II genes
18. Mechanism of synergy between TATA and initiator: Synergistic binding of TFIID following a putative TFIIA-induced isomerization
19. Five intermediate complexes in transcription initiation by RNA polymerase II
20. Factors involved in specific transcription by mammalian RNA polymerase II: Purification and analysis of transcription factor IIA and identification of transcription factor IIJ
21. A multiprotein mediator of transcriptional activation and its interaction with the C-terminal repeat domain of RNA polymerase II
22. A RNA polymerase II holoenzyme responsive to activators
23. Intermediates in formation and activity of the RNA polymerase II preinitiation complex: Holoenzyme recruitment and a postrecruitment role for the TATA box and TFIIB
24. Mediator of transcriptional regulation
25. The RNA polymerase II holoenzyme and its implications for gene regulation
26. Function of TAF(II)-containing complex without TBP in transcription by RNA polymerase II
27. Crystal structure of TFIID TAZA-box binding protein
28. Crystal structure of yeast TATA-binding protein and model for interaction with DNA
29. Crystal structure of a yeast TBP-TATA-box complex
30. Co-crystal structure of TBP recognizing the minor groove of a TATA element
31. Crystal structure of a TFIIB-TBP-TATA element ternary complex
32. Crystal structure of the yeast TFIIA-TBP-DNA complex
33. Crystal structure of a yeast TFIIA-TBP-DNA complex
34. 2.1 Å resolution refined structure of a TATA box-binding protein (TBP)
35. 1.9 Å resolution refined structure of TBP recognizing the minor groove of TATAAAAG
36. Crystal structure of a human TATA box-binding protein-TATA element complex
37. Structural basis of preinitiation complex assembly on human pol II promoters
38. TATA element recognition by the TATA box-binding protein has been conserved throughout evolution
39. How proteins recognize the TATA box
40. Equivalent mutations in the two repeats of yeast TATA-binding protein confer distinct TATA recognition specificities
41. Connecting a promoter-bound protein to TBP bypasses the need for a transcriptional activation domain
42. Stimulation of RNA polymerase II transcription initiation by recruitment of TBP in vivo
43. Analysis of co-crystal structures to identify the stereochemical determinants of the orientation of TBP on the TATA box
44. Pre-initiation complex assembly: Potentially a bumpy path
45. Bidirectional binding of TBP to the TATA box
46. DNA binding by TATA-box binding protein (TBP): A molecular dynamics simulation
47. RNA polymerase II holoenzymes and subcomplexes
48. High resolution mapping of nucleoprotein complexes by site-specific protein-DNA photocrosslinking: Organization of the human TBP-TFIIA-TFIIB-DNA quaternary complex
49. New core promoter element in RNA polymerase II-dependent transcription: Sequence-specific DNA binding by transcription factor IIB
50. Only one of the two DNA-bound Orientations of AP-1 found in solution cooperates with NFATp
51. The orientation of the AP-1 heterodimer on DNA strongly affects transcriptional potency
52. Molecular basis of cooperative DNA bending and oriented heterodimer binding in the NFAT1-Fos-Jun-ARRE2 complex
53. The leucine zipper domain controls the orientation of AP-1 in the NFAT-AP-1-DNA complex
54. DNA bending determines Fos-Jun heterodimer orientation
55. Chemical nucleases: New reagents in molecular biology
56. Chemical nucleases
57. Design of sequence-specific DNA-binding molecules
58. Chemical conversion of a DNA-binding protein into a site specific nuclease
59. Model studies indicate that copper phenanthroline induces direct strand breaks via β-elimination of the 2'-deoxyribonolactone intermediate observed in enediyne mediated DNA damage
60. Protease activity of 1,10-phenanthrotine-copper(I). Targeted scission of the catalytic site of carbonic anhydrase
61. Quantitative DNase footprint titration: A method for studying protein-DNA interactions
62. DNase footprinting: A simple method for the detecton of protein-DNA binding specificity
63. Species dependence of the major late promoter in adenovirus type 12 DNA
64. Model for binding of transcription factor TFIIB to the TBP-DNA complex
65. A mechanism for TAFs in transcriptional activation: Activation domain enhancement of TFIID-TFIIA-promoter DNA complex formation
66. Transcription factor (TF) IIB and TFIIA can independently increase the affinity of the TATA-binding protein for DNA
67. Factors involved in specific transcription by mammalian RNA polymerase II: Role of transcription factors IIA, IID, and IIB during formation of a transcription-competent complex
68. DNA affinity cleaving
69. Orientation of the transcription preinitiation complex in Archaea
70. Sequence-specific DNA binding by the S. shibatae TFIIB homolog, TFB, and its effect on promoter strength
71. Synergism in transcriptional activation: A kinetic view
72. Drosophila TFIIA directs cooperative DNA binding with TBP and mediates transcriptional activation
73. RNA polymerase II hotoenzyme contains SWI/SNF regulators involved in chromatin remodeling
74. A multiplicity of mediators: Alternative forms of transcriptional complexes communicate with transcriptional regulators
75. The Med proteins of yeast and their function through the RNA polymerase II carboxyl-terminal domain
76. Molecular genetics of the RNA polymerase II general transcriptional machinery
77. Design of TATA box-binding protein-zinc finger fusions for targeted regulation of gene expression
78. Yeast and human TFIID with altered DNA-binding specificity for TATA elements
79. TFIID can be rate limiting in vivo for TATA-containing, but not TATA-lacking, RNA polymerase II promoters