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Figure 3.
Figure 3. Details of the DNA interactions by SAP-1 and SRF
within the ternary complex. (a) The interface formed between the
DNA-binding domains of SAP-1, SRF and DNA is shown.
Protein-protein and protein-DNA interactions that are mediated
at this interface are shown. van der Waals interactions are
shown with dotted yellow lines and hydrogen bonds are shown with
broken red lines. (b) A comparison of protein-DNA contacts in
the ternary SAP-1/SRF/c-fos SRE complex and the binary
SAP-1/c-fos SRE complex is shown. The GGA core DNA sequence is
highlighted in green and protein-DNA contacts are indicated with
broken lines for van der Waals interactions and continuous lines
for hydrogen bonds. Protein-DNA contacts that are present in the
ternary complex but not in the binary complex are indicated on
red, and contacts that are in the binary complex but not in the
ternary complex are indicated in blue. Water mediated contacts
in the binary complex are not indicated since water mediated
protein-DNA contacts within the ternary complex are not clearly
resolved for comparison at the resolution of the current
structure. (c) A comparison of protein-DNA contacts in the
ternary SAP-1/SRF/c-fos SRE complex and the binary SRF/a-actinin
DNA complex is shown. The CArG-box DNA sequence is highlighted
in green and protein-DNA contacts are indicated with doted lines
for van der Waals interactions and solid lines for hydrogen
bonds. Color coding is as described in (b) and water-mediated
contacts are omitted.
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