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Biochemistry 2nd Exam
Protein Folding
28
Biology
Graduate
10/03/2011

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Term
At low salt concentration, GC DNA takes what form?
Definition
B-form
Term
At high concentrations, GC DNA takes which form?
Definition
Z-form
Term
In reference to melting temp, negative charges in DNA repel each other more at lower or higher salt concentrations
Definition
lower
Term
What accounts for higher melting temp in DNA?
Definition
GC bonding and H-bonding
Term
What's the order from least complex to most complex of chromatin?
Definition
DNA, mobile elements, nucleosome, beads, fiber chromosome scaffolding, chromatin, interphase chromosome
Term
chromatin is what?
Definition
histones wrapped in 2.5 loops of DNA
Term
what comprises the histone
Definition
1 tetramer of (h3)2(h4)2 and 2 dimers of h2a-h2b
Term
How to find the minor groove
Definition
look for the n-glycosyl bond in the GC bonds
Term
how to find the major groove
Definition
look for thymine's methyl which is pointing towards the major groove
Term
B-form DNA, residues per turn, twist per base pair, rise per base pair, base tilt, sugar pucker?
Definition
10, 36, 3.4, -6, c2-endo
Term
In what kinds of salt concentration is Z-form DNA found?
Definition
high salt concentration, 2-3 molar
Term
A form dna, residues per turn, twist per base pair, rise per base pair, base tilt, sugar pucker
Definition
11, 32.7, 2.9, 20, c3 endo
Term
By how much does catalytic power increase the rate at which a reaction occurs?
Definition
10^8 - 10^12
Term
B1 and B2 helices have how many amino acids
Definition
146 aas
Term
penicillin does what to glycopeptidase transpeptidase?
Definition
inhibits it by inhibiting this reaction which shuts down the biosynthesis of the cell wall
Term
the curve for myoglobin is..
Definition
hyperbolic because its a monomer
Term
the curve for hemoglobin is..
Definition
sigmoidal because its a tetramer
Term
The third strand in an alpha helix goes in the
Definition
major groove
Term
purine purine pyrimidine points more towards the major groove than pyrimidine purine pyrimidine. true or false?
Definition
true dat
Term
how many nts comprise a tRNA?
Definition
75-80
Term
What are the three RNA secondary structures?
Definition
internal, bulge, hairpin
Term
What are the steps for the SELEX procedure?
Definition
Start with a library of 30 x 10^18 aptamers, then binding process of aptamer to ligand of interest, PCR amplification(can lead to ss oligonucletoide), insertion of plasmid and transfection into E.Coli, pick colonies, and then sequence DNA
Term
pka of adenine nucleoside
Definition
3.6
Term
pka of guanine
Definition
1.6 and 9.2
Term
pka of 5' terminal phosphate
Definition
6, and then 1
Term
pka of cytosine
Definition
4.2
Term
pka of uracil/thymine
Definition
9.2
Term
Describe the catalytic triad
Definition
aspartic acid fixes the interactions between serine and histidine such that ser195 is the only serine that is enhanced due to its h-bonding with histidine in the active site
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