Supplementary Material for Large, Sequence-Dependent Effects on DNA Conformation by Minor Groove...
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Supplementary Material for Large, Sequence-Dependent Effects on DNA Conformation by Minor Groove Binding Compounds Denise S. Tevis, Arvind Kumar, Chad E. Stephens, David W. Boykin, and W. David Wilson * Department of Chemistry, Georgia State University, Atlanta, GA 30302, USA * To whom correspondence should be addressed. Tel: +1.404.413.5503; Fax: +1.404.413.5505; Email: [email protected] Supplementary Materials Figure 1. PAGE experiment with DB351 (A) and DB1213 (B) cast in the gel. Duplexes were incubated with compound prior to electrophoresis. Samples were digested with Bal-31 exonuclease prior to electrophoresis as indicated. Supplementary Materials Figure 2. PAGE experiment with no compound present (A). Plot of actual length squared (L act 2 ) versus relative length minus one (R L -1) are shown in the absence of compound (open triangles) and presence of DB75 (solid triangles) for cis A 5 (purple), cis ATATA (red), and cis A5-ATATA (green) duplexes (B). The sequence for the mixed duplex is shown in the bottom of the figure. Sequences not discussed in this paper were removed from this gel.
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Transcript of Supplementary Material for Large, Sequence-Dependent Effects on DNA Conformation by Minor Groove...
Supplementary Material for
Large, Sequence-Dependent Effects on DNA Conformation byMinor Groove Binding Compounds
Denise S. Tevis, Arvind Kumar, Chad E. Stephens,David W. Boykin, and W. David Wilson*
Department of Chemistry, Georgia State University, Atlanta, GA 30302, USA
*To whom correspondence should be addressed.Tel: +1.404.413.5503; Fax: +1.404.413.5505; Email: [email protected]
Supplementary Materials Figure 1. PAGE experiment with DB351 (A) and DB1213 (B) cast in the gel. Duplexes were incubated with compound prior to electrophoresis. Samples were digested with Bal-31 exonuclease prior to electrophoresis as indicated.Supplementary Materials Figure 2. PAGE experiment with no compound present (A). Plot of actual length squared (Lact
2) versus relative length minus one (RL-1) are shown in the absence of compound (open triangles) and presence of DB75 (solid triangles) for cis A5 (purple), cis ATATA (red), and cis A5-ATATA (green) duplexes (B). The sequence for the mixed duplex is shown in the bottom of the figure. Sequences not discussed in this paper were removed from this gel.
cis
A5
tran
s A
5
cis
ATA
T
tran
s A
TAT
20 b
p
M21
cis
A5
tran
s A
5
cis
ATA
T
tran
s A
TAT
20 b
p
M21
cis
A5
tran
s A
5
cis
ATA
T
tran
s A
TAT
Bal-31A B
mixed 5’-GAAAAACGCCGCATATACGCC GGCTTTTTGCGGCGTATATGC-5’
cis
A5
cis
ATA
T
20 b
p
M21
M21
mix
ed
A
0
0.5
1
1.5
2
1 104 1.5 104 2 104 2.5 104 3 104 3.5 104 4 104
cis A5cis ATATAcis A5-ATATA
RL-1
Lact
2
B
