Sandbox Reserved 430: Difference between revisions
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<Structure load='1a84' size='500' frame='true' align='right' caption='Cisplatin' scene='Insert optional scene name here' /> | <Structure load='1a84' size='500' frame='true' align='right' caption='Cisplatin' scene='Insert optional scene name here' /> | ||
As described above, the cisplatin ligand binds to the N7 atoms of the adjacent G6 and G7 guanine bases in a strand of DNA. The green screen | As described above, the cisplatin ligand binds to the N7 atoms of the adjacent G6 and G7 guanine bases in a strand of DNA. The green screen | ||
<scene name='Sandbox_Reserved_430/Binding_site/1'>binding interactions</scene> shows the platinum atom in pink, which is bound to the two N7 atoms of gaunine labeled in green. The N7 atoms are bound to the platinum atom in the ligand, creating a bend in the helix towards the guanine bases of 49 degrees and a total bend in the DNA of 79 degrees | <scene name='Sandbox_Reserved_430/Binding_site/1'>binding interactions</scene> shows the platinum atom in pink, which is bound to the two N7 atoms of gaunine labeled in green. The N7 atoms are bound to the platinum atom in the ligand, creating a bend in the helix towards the guanine bases of 49 degrees and a total bend in the DNA of 79 degrees<ref>Gelasco, Andrew. "NMR solution and structure of DNA Dodecamer Duplex Containing cis-Diammaineplatium" Department of Chemistry, MIT:1998</ref>. The guanine bases are favored over the adenine because of hydrogen bonding between the amine-hydrogens of the cisplatin and the O=C6 moiety of guanine[9]. The <scene name='Sandbox_Reserved_430/H-bonding/1'>hydrogen bonding</scene> is shown in this green screen, between the green labeled ammine hydrogens and the oxygen atom labeled in pink. The resulting platination also causes the duplex to unwind by approximately 25 degrees at the site of platination from the base pair T8-A17 to T5-A20. The <scene name='Sandbox_Reserved_430/Minor_groove/6'>minor groove</scene> screen shows the thymine molecules in pink and the adenine ones in green, showing the opening of the helix. These distortions in the duplex allow the minor groove opposite the platinum to be opened to 9.0-12 angstroms, making it shallow and wide. | ||
HMG-domain proteins (High-mobility group) bind to recognition sequences found in the minor groove. The bend in DNA caused by cisplatin leaves the minor groove more vulnerable and open for recognition by HMG-domain proteins. Since the expression of these proteins are correlated to tumor cells, the recognition of them by cisplatin-bound DNA could lead to a therapy of cancerous tumors | HMG-domain proteins (High-mobility group) bind to recognition sequences found in the minor groove. The bend in DNA caused by cisplatin leaves the minor groove more vulnerable and open for recognition by HMG-domain proteins. Since the expression of these proteins are correlated to tumor cells, the recognition of them by cisplatin-bound DNA could lead to a therapy of cancerous tumors<ref>Gelasco, Andrew. "NMR solution and structure of DNA Dodecamer Duplex Containing cis-Diammaineplatium" Department of Chemistry, MIT:1998</ref>. | ||
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===Additional Features=== | ===Additional Features=== | ||
<Structure load='1a84' size='500' frame='true' align='right' caption='The width of the minor groove of the cisplatin-DNA complex can be compared to the minor groove width of HMG protein-DNA complexes. The similar widths are evidence that Cisplatin is affiliated with HMG proteins.' scene='Insert optional scene name here' /> | <Structure load='1a84' size='500' frame='true' align='right' caption='The width of the minor groove of the cisplatin-DNA complex can be compared to the minor groove width of HMG protein-DNA complexes. The similar widths are evidence that Cisplatin is affiliated with HMG proteins.' scene='Insert optional scene name here' /> | ||
