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Transcription activation by catabolite activator protein (CAP).
Straightforward combination of the mechanisms for transcription activation at class I and class II CAP-dependent promoters permits synergistic transcription activation by multiple molecules of CAP, or by CAP and other activators. Expand
New core promoter element in RNA polymerase II-dependent transcription: sequence-specific DNA binding by transcription factor IIB.
Observations establish that transcription initiation involves a fourth core promoter element, the IIB recognition element (BRE), in addition to the TATAelement, the initiator element, and the downstream promoterelement, and involves a second sequence-specific general transcription factor, IIB, in added to transcription factor IID. Expand
Structural Organization of Bacterial RNA Polymerase Holoenzyme and the RNA Polymerase-Promoter Open Complex
We have used systematic fluorescence resonance energy transfer and distance-constrained docking to define the three-dimensional structures of bacterial RNA polymerase holoenzyme and the bacterial RNA… Expand
Structural Basis of Transcription Initiation
Crystal structures of functional transcription initiation complexes comprising Thermus thermophilus RNA polymerase, σA, and a promoter DNA fragment corresponding to the transcription bubble and downstream double-stranded DNA of the RNAP-promoter open complex show that σ recognize the –10 element and discriminator element through interactions that include the unstacking and insertion into pockets of three DNA bases and that RNAP recognizes the –4/+2 region. Expand
Transcription Activation at Class II CAP-Dependent Promoters: Two Interactions between CAP and RNA Polymerase
Transcription activation at Class II CAP-dependent promoters provides a paradigm for understanding how an activator can make multiple interactions with the transcription machinery, each interaction being responsible for a specific mechanistic consequence. Expand
Catabolite activator protein: DNA binding and transcription activation.
- C. Lawson, D. Swigon, K. Murakami, S. Darst, H. Berman, R. Ebright
- Biology, Medicine
- Current opinion in structural biology
- 1 February 2004
The structure of the CAP-alphaCTD-DNA complex has provided the first structural description of interactions between a transcription activator and its functional target within the general transcription machinery. Expand
Accurate FRET measurements within single diffusing biomolecules using alternating-laser excitation.
The sorting ability of confocal microscopy equipped with alternating-laser excitation (ALEX) is used to measure accurate FRET efficiencies and distances from single molecules, using corrections that account for cross-talk terms that contaminate the FRET-induced signal, and for differences in the detection efficiency and quantum yield of the probes. Expand
Random mutagenesis of gene-sized DNA molecules by use of PCR with Taq DNA polymerase.
Promoter structure, promoter recognition, and transcription activation in prokaryotes
This work has shown that Escherichia coli RNA polymerase holoenzyme consists of core enzyme, with subunit composition that is compatible with E. coli’s polypeptide-like structure. Expand
Dynamically driven protein allostery
- N. Popovych, Shangjin Sun, R. Ebright, C. Kalodimos
- Chemistry, Medicine
- Nature Structural &Molecular Biology
- 13 August 2006
It is shown that allostery can be mediated exclusively by transmitted changes in protein motions, and this work characterized the negatively cooperative binding of cAMP to the dimeric catabolite activator protein (CAP) at discrete conformational states. Expand