Kinetics of promoter binding: The bacterial closed complex (RNA polymerase bound to promoter DNA before strand opening) is best described as
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AIn equilibrium with free RNA polymerase and the promoter
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BUnaffected by promoter mutations in −35/−10 elements
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CBound more tightly when repressors are present
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DUnaffected by activator proteins that change binding dynamics
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EIrreversible and immediately converted to the open complex
Answer
Correct Answer: In equilibrium with free RNA polymerase and the promoter
Explanation
Introduction / Context: Transcription initiation involves a sequence of states: free RNA polymerase and promoter, a reversible closed complex, then an isomerization to a more stable open complex with locally melted DNA.
Given Data / Assumptions:
- Closed complex forms by initial binding and can dissociate.
- Open complex formation is promoted by favorable promoter sequences and activators.
Concept / Approach: The closed complex is a reversible association governed by binding equilibria. Transition to the open complex depends on promoter sequence determinants and regulatory proteins; repressors and activators alter occupancy and isomerization rates.
Step-by-Step Solution: Define closed complex → pre-melted, reversible binding of polymerase to promoter. Assess statements: equilibrium with free states → correct. Reject claims that promoter mutations or regulators have no effect; they do. Reject irreversibility; closed complex can dissociate without initiation.
Verification / Alternative check: Kinetic studies show on/off rates for closed complex formation; footprinting and promoter mutations alter binding affinity and open-complex formation.
Why Other Options Are Wrong: Promoter mutations in −35/−10 boxes greatly affect binding; repressors generally reduce occupancy; activators enhance binding/isomerization; the closed complex is not immediately irreversible.
Common Pitfalls: Confusing closed with open complex; assuming initial binding guarantees initiation.
Final Answer: In equilibrium with free RNA polymerase and the promoter.