ND STONY BROOK UNIVERSITY LOOSELEAF GENETICS: FROM GENES TO GENOMES
ND STONY BROOK UNIVERSITY LOOSELEAF GENETICS: FROM GENES TO GENOMES
6th Edition
ISBN: 9781260406092
Author: HARTWELL, Leland, HOOD, Leroy, Goldberg, Michael
Publisher: Mcgraw-hill Education/stony Brook University
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Chapter 20, Problem 21P

A generic signaling cascade is shown in the following figure. A growth factor (GF) binds to a growth factor receptor, activating the kinase function of an intracellular domain of the growth factor receptor. One substrate of the growth factor receptor kinase is another kinase, kinase A, that has enzymatic activity only when it is itself phosphorylated by the GF receptor kinase. Activated kinase A adds phosphate to a transcription factor. When it is unphosphorylated, the transcription factor is inactive and stays in the cytoplasm. When it is phosphorylated by kinase A, the transcription factor moves into the nucleus and helps turn on the transcription of a mitosis factor gene whose product stimulates cells to divide.

 Chapter 20, Problem 21P, A generic signaling cascade is shown in the following figure. A growth factor GF binds to a growth

a. The following list contains the names of the genes encoding the corresponding proteins. Which of these could potentially act as a proto-oncogene? Which might be a tumor-suppressor gene?
i. growth factor
ii. growth factor receptor
iii. kinase A
iv. transcription factor
v. mitosis factor
Though it is not pictured, the cell in the figure also has a phosphatase, an enzyme that removes phosphates from proteins—in this case, from the transcription factor. This phosphatase is itself regulated by kinase A.
b. What would you expect to be the effect when kinase A adds a phosphate group to the phosphatase? Would this activate the phosphatase enzyme or inhibit it? Explain.
c. Is the phosphatase gene likely to be a proto-oncogene or a tumor-suppressor gene or neither?
d. Several mutations are listed below. For each, indicate whether the mutation would lead to excessive cell growth or decreased cell growth if the cell were either homozygous for the mutation, or heterozygous for the mutation and a wild-type allele. Assume that 50% of the normal activity of all these genes is sufficient for
normal cell growth.
i. A null mutation in the phosphatase gene
ii. A null mutation in the transcription factor gene
iii. A null mutation in the kinase A gene
iv. A null mutation in the growth factor receptor gene
v. A mutation that causes production of a constitutively active growth factor receptor whose kinase function is active even in the absence of the growth factor
vi. A mutation that causes production of a constitutively active kinase A
vii. A reciprocal translocation that places the transcription factor gene downstream of a strong enhancer
viii. A mutation that prevents phosphorylation of the phosphatase enzyme
ix. A mutation that causes the production of a phosphatase that acts as if it is always phosphorylated
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Put the following steps for the outline of the growth factor signaling pathway in order: Map Kinase Kinase is Phosphorylated      Proteins involved in gene transcription are activated      Growth factor binds to its receptor in the cytoplasmic membrane    Receptor recruits adaptor protein and GEF    Autophosphorylation of tyrosine residues on the receptor   Structural change of the receptor activates Tyrosine Kinase    Map Kinase Kinase Kinase is phosphorylated   Ras, a small GTPase, is activated by the exchange of GTP for GDP    Map Kinase is Phosphorylated   Map Kinase enters the nucleus
Suppose that Protein J which is a hypothetical protein kinase receptor was determined to be related to the progression of cancer through its activation. It was also determined that the protein exists in the active and inactive forms. The said active form is highly similar to the Protein K's conformation. Ligands A, B, and C, which are lead inhibitor compounds, were optimized to inhibit Protein J. The affinities of the ligands are shown in the table. Kp values Active Protein J Inactive Protein J Protein K Ligand A 10 mM 20 nM 5 mM Ligand B 20 nM 10 mM 15 nM Ligand C 20 nM 15 nM 15 nM Question: Describe the relative binding affinities of Ligand A to Protein K and to the active and inactive forms of Protein J. Determine which will Ligand A bind with the highest, medium, and lowest affinity.
Suppose that Protein J which is a hypothetical protein kinase receptor was determined to be related to the progression of cancer through its activation. It was also determined that the protein exists in the active and inactive forms. The said active form is highly similar to the Protein K's conformation. Ligands A, B, and C, which are lead inhibitor compounds, were optimized to inhibit Protein J. The affinities of the ligands are shown in the table. Kp values Active Protein J Inactive Protein J Protein K Ligand A 10 mM 20 nM 5 mM Ligand B 20 nM 10 mM 15 nM Ligand C 20 nM 15 nM 15 nM Question: a. Which of the ligands, based on the table, has the highest specificity in binding to the target Protein J?

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ND STONY BROOK UNIVERSITY LOOSELEAF GENETICS: FROM GENES TO GENOMES

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