Electrostatic interactions between positively and negatively charged protein surfaces are the only interactions that contribute significantly to the overall AG for binding. TRUE FALSE In the absence of any competing nonspecific DNA binding sites, the amount of active transcription from the lac operon would remain very high, even when inducer is present. TRUE FALSE The term 'buried surface area' refers to the surface area on interacting proteins that is accessible to water prior to complex formation. TRUE FALSE Pyrimidine bases have the most hydrogen bonding capacity in the major groove of the DNA double helix. TRUE FALSE

Electrostatic interactions between positively and negatively charged protein surfaces are the only interactions that contribute significantly to the overall AG for binding. TRUE FALSE In the absence of any competing nonspecific DNA binding sites, the amount of active transcription from the lac operon would remain very high, even when inducer is present. TRUE FALSE The term 'buried surface area' refers to the surface area on interacting proteins that is accessible to water prior to complex formation. TRUE FALSE Pyrimidine bases have the most hydrogen bonding capacity in the major groove of the DNA double helix. TRUE FALSE

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Description: answer these true or false questions Electrostatic interactions between positively and negatively charged protein surfaces are the onlyinteractions that contribute significantly to the overall AG for binding.TRUE FALSEIn the absence of any competing

Biochemistry

6th Edition

ISBN:9781305577206

Author:Reginald H. Garrett, Charles M. Grisham

Publisher:Reginald H. Garrett, Charles M. Grisham

Chapter29: Transcription And The Regulation Of Gene Expression

Section: Chapter Questions

Problem 3P: Substrate Binding by RNA Polymerase RNA polymerase has t binding sites for ribonucleoside...

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Suppose that you have isolated a mutant strain of E. coli inwhich the lac operon is constitutively expressed. To understandthe nature of this defect, you create a merozygote in which themutant strain contains an F′ factor with a normal lac operonand a normal lacI gene. You then compare the mutant strain andthe merozygote with regard to their β-galactosidase activities inthe presence and absence of lactose. You obtain the followingresults:
The figure at the beginning of this chapter showsthe binding of both a Lac repressor tetramer and aCRP-cAMP complex to the regulatory region of thelac operon.a. What is the key feature of a regulatory protein suchas the Lac repressor or CRP that allows it to regulate specifically the genes or operons it is supposedto control?b. On the figure, show the positions of the followingcomponents: (i) A Lac repressor monomer; (ii) a Lacrepressor dimer; (iii) all four DNA binding domains ofthe Lac repressor tetramer; (iv) a single helix-turnhelix motif; (v) the o1 part and either the o2 or o3 partsof the lac operator (assume the operon would be transcribed from right to left on the figure); (vi) themultimerization domains of the four Lac repressormonomers; (vii) an inducer-interacting domain; (viii)the CRP-cAMP complex; and (ix) a DNA loop.c. What is the physical basis for the formation of theDNA loop shown in the figure?d. On the figure, show the position of two axes ofsymmetry in the sequence…
. In an effort to determine the location of an operator sitefor a negatively regulated gene, you have made a seriesof deletions within the regulatory region. The extent ofeach deletion is shown by the line underneath the sequence, and the resulting expression from the operon(i = inducible; c = constitutive; − = no expression) isalso indicated.... GGAT C T T AGCCGGCTAACATGATAAATATAA......C C T AGAATCGGCCGA TTGTA C T A TTT ATAT T ...1 i2 –3 c4 –5 ca. What can you conclude from these data about thelocation of the operator site?b. Why do you think deletions 2 and 4 show no expression of the gene?
The activator (V protein) that is present in the bacterial cell is normally phosphorylated, but only binds to the A site in the operon when it is not phosphorylated. What operon-independent mechanism can regulate the binding of (and also ultimately regulates the removal of) protein V to the A site? Describe this binding/removal mechanism in detail – useappropriateterminologythatwasdiscussedinlecture. Aspartofyouransweraboutthisactivatorproteinbindingto (and then detaching from) the A site of the operon, be sure to address what are the results of this type of control in terms of function of the operon.
The molecules indicated below can be used experimentally due to their roles in relation to the expression of the lac operon. Drag the listed molecules to their corresponding bin. Reset Help ONPG IPTG X-Gal allolactose Dragable beta-galactosidase cleaves this molecule to form a visible yellow product. beta-galactosidase cleaves this molecule which then dimerizes to form a visible blue product. This molecule induces the transcription of the lac operon by inactivating the lac repressor.
You are studying an operon containing three genesthat are cotranscribed in the order hupF, hupH, andhupG. Diagram the mRNA for this operon, showingthe location of the 5′ and 3′ ends, all open readingframes, translational start sites, stop codons, transcription termination signals, and any regions thatmight be in the mRNA but do not serve any of thesefunctions.
The promoter of an operon is the site to which RNApolymerase binds to begin transcription. Certain basechanges in the promoter result in a mutant site towhich RNA polymerase cannot bind. Would you expect mutations in the promoter that prevent binding ofRNA polymerase to act in trans on another copy ofthe operon on a plasmid in the cell, or only in cis onthe copy immediately adjacent to the mutated site?
One of the main lessons of this chapter is that severalbacterial genes are often transcribed from a singlepromoter into a large multigene (polycistronic) transcript. The region of DNA containing the set of genesthat are cotranscribed, along with all of the regulatoryelements that control the expression of these genes, iscalled an operon.a. Which of the mechanisms in the following listcould explain differences in the levels of themRNAs for different operons?b. Which of the mechanisms in the following listcould explain differences in the levels of theprotein products of different genes in the sameoperon?i. Different promoters might have different DNAsequences.ii. Different promoters might be recognized bydifferent types of RNA polymerase.iii. The secondary structures of mRNAs might differ so as to influence the rate at which they aredegraded by ribonucleases.PROBLEMSProblems 575a. Why did the mating with a nonlysogenic recipientresult in phage growth and release, but the infectionof a…
In the presence of lactose and the presence of glucose the lac operon is V [ Select ] Lacl is [ Select ] t. expressed at basal levels strongly expressed to the CAP binding site. not expressed
What properties demonstrate that the lac repressor is a protein?Describe the evidence that it indeed serves as a repressor withinthe operon system.
Explain why (a) inactivation of the O2 or O3 sequence of the lac operon causes only a twofold loss in repression, and (b) inactivation of both O2 and O3 reduces repression ∼70-fold.
Based on its sequence similarity to Apobec1,which deaminates Cs to Us in RNA, activation-induceddeaminase (AID) was originally proposed to work on RNA.But definitive experiments in E. coli demonstrated thatAID deaminates Cs to Us in DNA. The authors of the paperexpressed AID in bacteria and followed mutations in aselectable gene. They found that AID expression increasedmutations about fivefold above the background level inthe absence of AID expression. More importantly, theyfound that 80% of the induced mutations were G→A orC→T. Does this fit with your expectation if AID-inducedmutations arose by deamination of C to U in the DNA?