Learning Objectives Flashcards
(244 cards)
What is free energy?
the amount of work that can be extracted from a system
________ has the highest reduction potential
oxygen
4 types of kinetic energy
- radiant
- electric
- thermal
- mechanical
Potential energy is stored in … (4)
- redox pairs
- chemical bonds
- concentration gradients
- electric fields from charge separation
Equation relating electric potential and free energy
deltaG = -nFdeltaE
High energy phosphate bonds
P-O-P (ATP)
P-N (phosphocreatine)
C-O-P (phosphoenolpyruvate)
Solubility of nucleotide components
least to most: bases, nucleoside, nucleotide
Factors that affect Tm
- G-C ratios
- concentration
- pH
- chain length
Methods for attacking DNA metabolism
- synthesis of precursors (dNTPs)
- intercalation
- covalently binding base pairs
- topoisomerase
Eukaryote leading and lagging strand polymerases
leading strand: pol epsilon
lagging strand: pol delta
Diseases from mutations in DNA repair mechanisms
- Cockanye’s syndrome
- xeroderma pigmentosum
mutations in mismatch repair lead to ___________
Lynch Syndrome (hereditary non-polyposis colorectal cancer)
Components of the RNA Polymerase II Pre-Initiation Complex (4)
- RNA Pol II
- TATA box binding proteins
- general transcription factors
- mediator
What does TFIIH do?
facilitates nucleotide excision repair (adds PO4 to C-terminal domain of Pol II and acts as a helicase to open DNA strands
__________ recognizes the 5’ cap of mRNA for transport to the ribosome
translation factor elf4e
If a transcript has a 5’-methyl-G cap, it was made by ________
RNA Pol II
Steps for adding a 5’-cap to a pre-mRNA
- triphosphatase
- guanylyltransferase
- guanine-7-methyltransferase
Genetic diseases caused by splicing defects
- Marfan’s syndrome (fibrillin gene)
- spinal muscular atrophy (exon 7)
Reactions that make the mature 3’-end of mRNA
cleavage and polyadenylation
Poly-A tail is necessary for RNA polymerase complex to _____________________
detach from DNA (termination)
Hemophilia B Leyden
- X-linked disease that affects clotting (reduced factor IX gene)
- gets better at puberty because androgen receptor becomes active (binds overlapping sites at promotor)
4 major families of sequence-specific DNA binding proteins
- homeodomain (helix-turn-helix)
- zinc finger
- basic leucine zipper
- basic helix-loop-helix
Give an example of a disease where histone acetylation is altered
Rubinstein-Taybi syndrome (mutation in copy of CREB-binding protein gene; loss of HAT activity)
heterochromatin is mostly (hypo/hyperacetylated)
hypoacetylated (transcriptionally inactive)