Biochemistry 430/530Andrew [email protected] 4-39 (by appointment)492-3813
http://www2.biochem.ualberta.ca/MacMillanLab/
“Course Notes”
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Medicine/Physiology Chemistry
Szostak, Greider, Blackburn Steitz, Ramakrishnan, Yonath
1989 Sidney Altman, Thomas R. Cech2006 Andrew Z. Fire, Craig C. Mello1993 Richard J. Roberts, Phillip A. Sharp
1) RNA Structure/Reactivity (1)2) Ribozymes/Riboswitches(2)3) pre-mRNA Splicing (3)4) RNA Degradation/RNAi(2)
ProcessingprecursorRNAspre-mRNApre-tRNApre-rRNApre-snoRNAcap formationend formationsplicingeditingchemical modification(rare bases)RNAi (siRNA, miRNA)
Chemistry Review!
El LG Nu ElNu
LG+
H A H BB
A+
M2+
+ R-O-H R-O-HM2+
Acid/Base - Bronsted Base
Acid/Base - Lewis Acid
Nucleophilic Substitution
RNA Structure and Reactivity
N
NN
N N
NN
N
N
N
N
N
N
NH
O
H
OH
N
OO O
H
O
NH
HN
H
H
H
G A
U 5-Me-U C
OO
O O
Base
PO
P
O
HO
O O
O
1
23
4
567
8
9
3
216
54
1’2’3’
4’
5’
Nucleic AcidsChemical
Functionalities-Hydrogen Bonding-Metal Coordination-Acid/Base-Nucleophilic Reactions
Hydrogen Bonding
N
NN
N
NN
HN
O
H
O
NH
H
H
G
C
N
NN
N
NN
HN
O
H
O
NH
H
H
G
C
D
A
~3-5 kcal/mol(excluding entropy - how much is this worth?)
N
NN
N
N
NN
N
NN
NN
H
O
H N
O
O
H
O
NH
HN
H
H
H
G
A
U
C
N
NN
N
N
N
H
O
O
HN
H
A
U
Base-Pairing in RNA
Watson-Crick Hoogsteen
N
NN
N
N
NN
N
NN
NN
H
O
H N
O
O
H
O
NH
HN
H
H
H
G
A
U
C
N
NN
N
N
N
H
O
O
HN
H
A
U
Base-Pairing in RNA
Watson-Crick Hoogsteen
Major
Minor