SPRING 2014 BIOCH 3010 Exam 3
DNA synthesis (Replication)
Involved the usage of radioactively-labeled heavy nitrogen (N15) that could incorporate into
the growing DNA strand of a microorganism to be replicated.
DnaA proteins bind at 9 bp repeats
Replication begins when DnaA binds 9 base pairs upstream of the origin of
Binding leads to the separation at the 13-mer repeats of the DNA strand,
1. Briefly describe Metachromatic leukodystrophy. Your answer should include-
What inheritance pattern does the disease follow? What does the enzyme
arylsulfatase A do? What is the molecular basis of pathology? Wh
Membrane function, composition and chemical properties of lipids that allow them
to assemble into membranes.
- Membrane Function Provide barrier between a cell and its environment as well as between organelles within
Flexible, self-sealing and sel
BCHM 3010 Honors Homework Assignment 1
Our first two papers are going to be discuss the importance of protein folding. The two classic
Science papers are examining the effects of mutations in superoxide dismutase on amyotrophic
lateral sclerosis (ALS) or
BIOCH 301 Honors Homework Assignment 3
The discussion papers (J Biol Chem 98, 543-53, 1932 and J Biol Chem 69, 435-41, 1926) are
classics in biochemistry. I think that you will enjoy reading these papers - written in a completely
different style than thos
BIOCH 301 Honors Homework Assignment 2
The discussion papers (Brown and Rose Cell 68, 533-44, 1992 and Schroeder et al. PNAS 91,
12130-4, 1994) for this assignment are recent classics in biochemistry/molecular biology/cell
biology. These two publications
BCHM 3010 Honors Homework Assignment 4
In addition to the standard 20 amino acids, two additional amino acids, selenocysteine and
pyrrolysine, can be inserted as the protein is being synthesized. A few proteins in all cells (such
as formate dehydrogenase
BCHM 3010 Honors Homework Assignment 5
This assignment's discussion papers from the laboratory of Elizabeth Blackburn are recent
classics in biochemistry/enzymology. Liz Blackburn's research has focused on examining how
eukaryotes are able to maintain the
BCHM H3010 EXAM 1 Review Sheet
Amino acids - memorize 20 standard structures and 1- and 3-letter abbreviations
Uncommon amino acids do not have to memorizeSelenocysteine (SeCys) and
Pyrrolysine (Pyl) should memorize
Optical activity of amino acid
Regulatory enzymes-Exhibit increased or decreased catalytic activity in response to certain
Reversible covalent modification- add different groups onto enzymes to change their functions
Kinase- attachment of
What are proteins?
What do they do?
Catalyze reactions-they are enzymes
Signaling (specialized functions)
General structure of an amino
Heme = protoporphyrin + iron
His as a fifth coordinate for
Structure of myoglobin
O2 binding to myoglobin
Orientation of O2 and CO2
binding in myoglobin
Schematic of O2-binding site
Honors BCHM 3010
Homework # 4
Protein folding, Interrupted
1. What was the first three dimensional structure determined?
The first three dimensional protein structure determined was that of
myoglobin in 1957
Honors BCHM 3010
Homework # 3
Seeing the reaction
In this study, the authors imaged different reaction products with two types of
microscopyscanning tunneling microscopy and atomic force microscopy.
Atomic Force M
Protein needed only for the initiation of RNA synthesis, it is a bacterial
transcription initiation factor that enables specific binding of RNA
polymerase to gene promoters
Varies between species
Protein Synthesis Homework Notes:
3-TGACGTGAT-5 Complementary Strand
5-ACUGCACUA-3 Coding strand
N-ACU|GCA|CUA-C mRNA strand
N-Thr-Ala-Leu-C Polypeptide sequence
An intron is a segment of a gene that does not code for
What is the purpose of the experiments shown in Figure 1C and 1D of Srinivasan et
The purpose of the Northern blot is to indicate the level of tRNA present in the cell M.
bakeri MS using a selective 72 ba
1. In Figure 1C of the Zhang and Bryant paper, why is Schiffs reagent being used
to detect 1-oxoglutarate decarboxylase (OGDC) activity?
In cyanobacteria the SynPCC7002_A2770 gene is used in lieu of 2-oxoglutarate
1. Why did Chen et al. choose to investigate the function of Rcf1?
Investigation of Rcf1 function was undertaken because it is a highly conserved protein
within eukaryotes. It is an unstudied protein, and its analog ha
1. Lysine acetylation is a reversible posttranslational modification in both
prokaryotes and eukaryotes. What properties does the acetylation introduce
into Lys at physiological pH values?
It has been known that posttransla
Homework Assignment #2
1. What is the prion hypothesis?
The infectious agent is an aberrant conformation isoform of the normal PrP
(PrPC), a glycosylphsophatidylinositol (GPI) anchored glycoprotein. The
(1) In Figure 2a of the Cell 43, 405-413, 1985 paper, what is the conclusion drawn
from the results?
Repeats of sequence TTGGGG were synthesized onto synthetic telomere primers. Also self-
priming and template slippa
Homework 5: Success
In the TED Radio Hour show on success, five different visions of success were discussed.
Briefly summarize the main tenets of each philosophy.
o J and live longer, found that smiles induce
Enzyme is a biological
How does enzymatic catalysis
differ from chemical catalysis?
Enzymes can contain
. or coenzymes.
Six classes of enzymes
Catalyze oxidation-reduction reactions