1. (a)By binding one L-tryptophan molecule/monomer, the trp repressor binds to DNA to sup-press synthesis of L-tryptophan in E. coli. Below is the amino acid sequence of the helix - reverse turn- helix region of the trp repressor that binds to DNA compared to the sequence of the correspondingDNA binding motif of the Prl protein. A diagram of the trp repressor dimer is also shown.TrpPrlTrpPrl80-Gly-Glu-Met-Ser-Gln-Arg-Glu-Leu-Lys-Asn-Glu-Leu-Gly-Ala-Gly-Ile--Ser-Glu-Glu-Ala-Lys-Glu-Glu-Leu-Ala-Lys-Lys-Cys-Gly-Ile-Thr-Val-trp helix 570trp helix 4Prl helix80Prl helixAla-Thr-Ile-Thr-Arg-Gly-Ser-Asn-Ser-Leu-Lys-Ala-Ala-Ser-Gln-Val-Ser-Asn-Trp-Phe-Gly-Asn-Lys-Arg-Ile-Arg-reverse turn90Comparing the two protein sequences above, identify all amino acid pairs that differ in electrostaticcharge due to proton dissociable groups (assume pH 7). Indicate the charge of both residues for eachsuch pair.(b) Circle the pair of residues for which the electrostatic charge due to proton dissociable groupsis the same but the residues differ.70(c)Below the sequence of the helix-turn-helix section of the trp-repressor protein is listedaccording to the three-letter abbreviations of each amino acid residue. Write the corresponding se-quence according to the one-letter abbreviation below each amino acid residue.-Gly-Glu-Met-Ser-Gln-Arg-Glu-Leu-Lys-Asn-Glu-Leu-Gly-Ala-Gly-90Ile-Ala-Thr-Ile-Thr-Arg-Gly-Ser-Asn-Ser-Leu-Lys-Ala-Ala-

An atom's or molecule's electrostatic charge, which can be either positive or negative depending on…

Answered: 1. (a) By binding one L-tryptophan…

Biochemistry

9th Edition

ISBN:9781319114671

Author:Lubert Stryer, Jeremy M. Berg, John L. Tymoczko, Gregory J. Gatto Jr.

Publisher:Lubert Stryer, Jeremy M. Berg, John L. Tymoczko, Gregory J. Gatto Jr.

Chapter1: Biochemistry: An Evolving Science

Section: Chapter Questions

Problem 1P

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Strain ROFL4 has a premature stop mutation in the lacZ gene, resulting in a nonfunctional b-galactosidase. Otherwise all other parts of the operon are functional. Circle the least number of components for an F' plasmid that will restore normal regulation and function of the lac operon in the resulting partial diploid. (may need more than one) (a) lacI+ (b) lacO+ (c) lacP+ (d) lacZ+ (e) None, cannot be restored.
Negative supercoiling of DNA favors the transcription of genes because it facilitates unwinding. However, not all promoter sites are stimulated by negative supercoiling. The promoter site for topoisomerase II itself is a noteworthy exception. Negative supercoiling decreases the rate of transcription of this gene. Propose a possible mechanism for this effect and suggest a reason why it may occur.
Many bacterial genes with related functions are arranged in operons, sets of contiguous genes that are under the control of a single promoter and are transcribed together. (a) What is the advantage of this arrangement? (b) How might eukaryotic cells, which do not contain operons, ensure the simultaneous transcription of different genes?
A certain amber suppressor inserts glutamine in response to the amber codon. What is the most likely change in the anticodon of a tRNAGln that created this suppressor strain?
What is the probability that the palindromic symmetry of the trp repressor target DNA sequence is merely accidental?
Describe how transcription would be affected in the Galactose metabolizing pathway in Yeast in the presence of the following mutations. 1. A mutation that resulted in an inability of Gal80 to enter the nucleus. 2. A mutation that resulted in a lack of ability of Gal3 to bind galactose.
O The lac operon in E.coli encodes enzymes necessary for the breakdown of lactose. For each enzyme (lac Z and lac Y), indicate with a + or-whether or not it is made when there is no lactose or when there is lactose. B-galactosidase (lac Z) No Lactose Permease (lac Y) Lactose Lactose No Lactose Genotype PP0 Z Y/I P*O*Z•Y* I'POCZ Y*/I P* O©Z*Y° P O Z'Y/I P'OʻZ'Y* PP O ZY*/IP*O*Z*Y* IP OCZ Y /I P*O*Z•Y* IPO ZY*/I* P*O©Z*Y• I'PO*Z Y*/IP'O*Z*Y°
A newly identified protein from the cells of the Panopyra plant on Pandora was shown to inhibit translation of its target genes by binding to the 5’ UTR of the mRNA and preventing ribosome binding. A possible way this inhibition may be relieved by an sRNA would be: Group of answer choices a)The sRNA acts as a silencer, suppressing the inhibitory protein and allowing translation to take place. b)The sRNA acts as a decoy, sequestering the inhibitory protein and allowing translation to take place. c)The sRNA acts as a marker, flagging the inhibitory protein for ubiquitination and allowing translation to take place.
Predict the effects of deleting the following regions of DNA: (a) The gene encoding lac repressor (b) The lac operator (c) The gene encoding CAP
A bacterial species has a hypothetical sigma promoter that has the following sequence: TTGGCA - 18 bases - TATAAT What change in the level of transcription would there be if the sequence was mutated to: TTCGCA -18 bases -TATAAT O The mutation would bind the promoter to the consensus and produce normal levels of transcription O The mutation would inhibit the promoter thereby inhibiting transcription The mutation would move the promoter away from consensus and reduce the level of transcription O No change the consensus TATAAT sequence in the same. D00 F3 F4 F5 F6 F7 F8 F9 % & 5 6 7 8 9 %24
To characterize the promoter of the gadA operon you made a series of deletion mutants removing pieces of the promoter to see what would happen. The results are found below: gad promoter gada gadX gadz 450 +1 lacz activity transcription start site pH 2.0 pH 7.0 A gad promoter beta-galactosidase (lacZ) +++ 450 gad promoter beta galactosidase (lacZ) +++ +++ 300 +1 gad promoter beta galactosidase (lacZ) 150 D gad beta galactosidase (lacz) -450 150 E gad promoter beta-galactosidase (lacZ) -450 -300 Based on these results, what can you conclude about the gad promoter? O a. The promoter is only regulated by repression Ob. The promoter is regulated by a mix of activation and repression O c. The promoter is only regulated by activation O d. The promoter has multiple operators and multiple enhancers
a) State the functions of the subunits of RNA polymerase and describe transcription initiation. b)Draw a diagram to illustrate the lac operon and explain how it functions in the presence of, i) glucose and ii) lactose in the culture medium

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