Florian Brueckner coauthored structural experiments on how RNA polymerase II moves along DNA during transcription. With Patrick Cramer, he prepared crystals containing an elongating enzyme complex in which states before and after movement could interconvert. Soaking the crystals with alpha-amanitin trapped a new arrangement interpreted as a possible intermediate. The resulting X-ray crystallography structure was refined at 3.4 angstrom resolution.[ref]
The entering DNA base lay above a displaced RNA polymerase bridge helix, while the RNA polymerase trigger loop adopted a wedged arrangement. The authors proposed that the inhibitor restricts movement of these parts, interfering with both nucleotide incorporation and advancement. This illustrates a productive use of inhibition: slowing a molecular machine can make otherwise transient arrangements accessible to structural measurement. The data support a mechanistic model, rather than providing a direct movie of every motion in a living biological cell.[ref]
Structural basis of transcription inhibition by alpha-amanitin and implications for RNA polymerase II translocation by Florian Brueckner and Patrick Cramer. abstract, bridge helix, trigger loop and proposed mechanism
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