Comparison of TATA-binding protein recognition of a variant and consensus DNA promoters

Robyn M. Powell, Kay M. Parkhurst, Lawrence J Parkhurst

Research output: Contribution to journalArticle

33 Citations (Scopus)

Abstract

Assembly of transcription pre-initiation complexes proceeds from the initial complex formed between "TATA" bearing promoter DNA and the TATA-binding protein (TBP). Our laboratory has been investigating the relationships among TATA sequence, TBP·TATA solution structure, recognition mechanisms, and transcription efficiency. TBP·TATA interactions have been modeled by global analysis of detailed kinetic and thermodynamic data obtained using fluorimetric and fluorometric techniques in conjunction with fluorescence resonance energy transfer. We have reported recently that TBP recognition of two consensus promoters, adenovirus major late (AdMLP: TATAAAAG) and E4 (TATATATA), is well described by a linear two-intermediate mechanism with simultaneous DNA binding and bending. Similar DNA geometries and high transcription efficiencies characterize these TBP·TATA complexes. Here we show that, in contrast to the consensus sequences, TBP recognition of a variant sequence (C7: TATAAACG) is described by a three-step model with two branching pathways. One pathway proceeds through an intermediate having severely bent DNA, reminiscent of the consensus interactions, with the other branch yielding a unique conformer with shallowly bent DNA. The resulting TBP·C7 complex has a dramatically different solution conformation than for TBP·DNACONSENSUS and is correlated with diminished relative transcription activity. The temperature dependence of the TBP·C7 helical bend is postulated to derive from population shifts between the conformers with slightly and severely bent DNA.

Original languageEnglish (US)
Pages (from-to)7776-7784
Number of pages9
JournalJournal of Biological Chemistry
Volume277
Issue number10
DOIs
StatePublished - Mar 8 2002

Fingerprint

TATA-Box Binding Protein
Transcription
DNA
Bearings (structural)
Fluorescence Resonance Energy Transfer
Consensus Sequence
DNA-Binding Proteins
Thermodynamics
Adenoviridae
Conformations
Temperature
Kinetics
Geometry
Population

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Cell Biology

Cite this

Comparison of TATA-binding protein recognition of a variant and consensus DNA promoters. / Powell, Robyn M.; Parkhurst, Kay M.; Parkhurst, Lawrence J.

In: Journal of Biological Chemistry, Vol. 277, No. 10, 08.03.2002, p. 7776-7784.

Research output: Contribution to journalArticle

@article{c8d3052a3b7c4a1c8e87183c84674b13,
title = "Comparison of TATA-binding protein recognition of a variant and consensus DNA promoters",
abstract = "Assembly of transcription pre-initiation complexes proceeds from the initial complex formed between {"}TATA{"} bearing promoter DNA and the TATA-binding protein (TBP). Our laboratory has been investigating the relationships among TATA sequence, TBP·TATA solution structure, recognition mechanisms, and transcription efficiency. TBP·TATA interactions have been modeled by global analysis of detailed kinetic and thermodynamic data obtained using fluorimetric and fluorometric techniques in conjunction with fluorescence resonance energy transfer. We have reported recently that TBP recognition of two consensus promoters, adenovirus major late (AdMLP: TATAAAAG) and E4 (TATATATA), is well described by a linear two-intermediate mechanism with simultaneous DNA binding and bending. Similar DNA geometries and high transcription efficiencies characterize these TBP·TATA complexes. Here we show that, in contrast to the consensus sequences, TBP recognition of a variant sequence (C7: TATAAACG) is described by a three-step model with two branching pathways. One pathway proceeds through an intermediate having severely bent DNA, reminiscent of the consensus interactions, with the other branch yielding a unique conformer with shallowly bent DNA. The resulting TBP·C7 complex has a dramatically different solution conformation than for TBP·DNACONSENSUS and is correlated with diminished relative transcription activity. The temperature dependence of the TBP·C7 helical bend is postulated to derive from population shifts between the conformers with slightly and severely bent DNA.",
author = "Powell, {Robyn M.} and Parkhurst, {Kay M.} and Parkhurst, {Lawrence J}",
year = "2002",
month = "3",
day = "8",
doi = "10.1074/jbc.M110147200",
language = "English (US)",
volume = "277",
pages = "7776--7784",
journal = "Journal of Biological Chemistry",
issn = "0021-9258",
publisher = "American Society for Biochemistry and Molecular Biology Inc.",
number = "10",

}

TY - JOUR

T1 - Comparison of TATA-binding protein recognition of a variant and consensus DNA promoters

AU - Powell, Robyn M.

AU - Parkhurst, Kay M.

AU - Parkhurst, Lawrence J

PY - 2002/3/8

Y1 - 2002/3/8

N2 - Assembly of transcription pre-initiation complexes proceeds from the initial complex formed between "TATA" bearing promoter DNA and the TATA-binding protein (TBP). Our laboratory has been investigating the relationships among TATA sequence, TBP·TATA solution structure, recognition mechanisms, and transcription efficiency. TBP·TATA interactions have been modeled by global analysis of detailed kinetic and thermodynamic data obtained using fluorimetric and fluorometric techniques in conjunction with fluorescence resonance energy transfer. We have reported recently that TBP recognition of two consensus promoters, adenovirus major late (AdMLP: TATAAAAG) and E4 (TATATATA), is well described by a linear two-intermediate mechanism with simultaneous DNA binding and bending. Similar DNA geometries and high transcription efficiencies characterize these TBP·TATA complexes. Here we show that, in contrast to the consensus sequences, TBP recognition of a variant sequence (C7: TATAAACG) is described by a three-step model with two branching pathways. One pathway proceeds through an intermediate having severely bent DNA, reminiscent of the consensus interactions, with the other branch yielding a unique conformer with shallowly bent DNA. The resulting TBP·C7 complex has a dramatically different solution conformation than for TBP·DNACONSENSUS and is correlated with diminished relative transcription activity. The temperature dependence of the TBP·C7 helical bend is postulated to derive from population shifts between the conformers with slightly and severely bent DNA.

AB - Assembly of transcription pre-initiation complexes proceeds from the initial complex formed between "TATA" bearing promoter DNA and the TATA-binding protein (TBP). Our laboratory has been investigating the relationships among TATA sequence, TBP·TATA solution structure, recognition mechanisms, and transcription efficiency. TBP·TATA interactions have been modeled by global analysis of detailed kinetic and thermodynamic data obtained using fluorimetric and fluorometric techniques in conjunction with fluorescence resonance energy transfer. We have reported recently that TBP recognition of two consensus promoters, adenovirus major late (AdMLP: TATAAAAG) and E4 (TATATATA), is well described by a linear two-intermediate mechanism with simultaneous DNA binding and bending. Similar DNA geometries and high transcription efficiencies characterize these TBP·TATA complexes. Here we show that, in contrast to the consensus sequences, TBP recognition of a variant sequence (C7: TATAAACG) is described by a three-step model with two branching pathways. One pathway proceeds through an intermediate having severely bent DNA, reminiscent of the consensus interactions, with the other branch yielding a unique conformer with shallowly bent DNA. The resulting TBP·C7 complex has a dramatically different solution conformation than for TBP·DNACONSENSUS and is correlated with diminished relative transcription activity. The temperature dependence of the TBP·C7 helical bend is postulated to derive from population shifts between the conformers with slightly and severely bent DNA.

UR - http://www.scopus.com/inward/record.url?scp=0037040899&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=0037040899&partnerID=8YFLogxK

U2 - 10.1074/jbc.M110147200

DO - 10.1074/jbc.M110147200

M3 - Article

C2 - 11726667

AN - SCOPUS:0037040899

VL - 277

SP - 7776

EP - 7784

JO - Journal of Biological Chemistry

JF - Journal of Biological Chemistry

SN - 0021-9258

IS - 10

ER -