Exam3-2021_key-correction

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University of California, Berkeley *

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102

Subject

Chemistry

Date

Feb 20, 2024

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1

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Q07 (8 pts) Each answer should be “yes” or “no” followed by a sentence or two. L updated/corrected May 1, 2023 R In the context of dsDNA, would the features of this guanine-derived nucleobase impact... QO7(i) ...a transcription factor’s ability to recognize this base as an guanine? Explain why. QO07(i) answer: 1 point for “no” 1 point for anything about the major groove and/or the required face not being altered QO7(ii) ...this base’s ability to form the standard base pair (the one guanine forms)? Explain why. QO07(iv) answer: 1 point for “no” (“yes” is also reasonable see note below) 1 point for anything about the presence of functional groups and/or base pairing Note: This question is overly tricky. The base pairing can happen, but only if the C=0 group re-orients such that it's pointed “down” (which is possible/reasonable). remember that there is free rotation of the nucleobase via its bond to the sugar In the context of dsDNA, would the features on this cytosine-derived nucleobase impact... QO7(iii) ...a transcription factor’s ability to recognize this base as an cytosine? Explain why. QO7(iii) answer: 1 point for “yes” 1 point for anything about the major groove or sterics (e.g. steric clash, bulky group), ...interference with or blocking of binding QO7(iv) ...this base’s ability to form the standard base pair (the one cytosine forms)? Explain why. QO07(ii) answer: 1 point for “no” 1 point for anything about the presence of functional groups and/or base pairing Note: The H-bond face is shown pointing N\, but the base could rotate to make it point
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